LOCUS NM_169528 2115 bp mRNA linear INV 26-DEC-2023
DEFINITION Drosophila melanogaster squid (sqd), transcript variant B, mRNA.
ACCESSION NM_169528
VERSION NM_169528.2
DBLINK BioProject: PRJNA164
BioSample: SAMN02803731
KEYWORDS RefSeq.
SOURCE Drosophila melanogaster (fruit fly)
ORGANISM Drosophila melanogaster
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta;
Pterygota; Neoptera; Endopterygota; Diptera; Brachycera;
Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora.
REFERENCE 1 (bases 1 to 2115)
AUTHORS Matthews,B.B., Dos Santos,G., Crosby,M.A., Emmert,D.B., St
Pierre,S.E., Gramates,L.S., Zhou,P., Schroeder,A.J., Falls,K.,
Strelets,V., Russo,S.M. and Gelbart,W.M.
CONSRTM FlyBase Consortium
TITLE Gene Model Annotations for Drosophila melanogaster: Impact of
High-Throughput Data
JOURNAL G3 (Bethesda) 5 (8), 1721-1736 (2015)
PUBMED 26109357
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 2115)
AUTHORS Crosby,M.A., Gramates,L.S., Dos Santos,G., Matthews,B.B., St
Pierre,S.E., Zhou,P., Schroeder,A.J., Falls,K., Emmert,D.B.,
Russo,S.M. and Gelbart,W.M.
CONSRTM FlyBase Consortium
TITLE Gene Model Annotations for Drosophila melanogaster: The
Rule-Benders
JOURNAL G3 (Bethesda) 5 (8), 1737-1749 (2015)
PUBMED 26109356
REMARK Publication Status: Online-Only
REFERENCE 3 (bases 1 to 2115)
AUTHORS Hoskins,R.A., Carlson,J.W., Wan,K.H., Park,S., Mendez,I.,
Galle,S.E., Booth,B.W., Pfeiffer,B.D., George,R.A., Svirskas,R.,
Krzywinski,M., Schein,J., Accardo,M.C., Damia,E., Messina,G.,
Mendez-Lago,M., de Pablos,B., Demakova,O.V., Andreyeva,E.N.,
Boldyreva,L.V., Marra,M., Carvalho,A.B., Dimitri,P., Villasante,A.,
Zhimulev,I.F., Rubin,G.M., Karpen,G.H. and Celniker,S.E.
TITLE The Release 6 reference sequence of the Drosophila melanogaster
genome
JOURNAL Genome Res 25 (3), 445-458 (2015)
PUBMED 25589440
REFERENCE 4 (bases 1 to 2115)
AUTHORS Hoskins,R.A., Carlson,J.W., Kennedy,C., Acevedo,D., Evans-Holm,M.,
Frise,E., Wan,K.H., Park,S., Mendez-Lago,M., Rossi,F.,
Villasante,A., Dimitri,P., Karpen,G.H. and Celniker,S.E.
TITLE Sequence finishing and mapping of Drosophila melanogaster
heterochromatin
JOURNAL Science 316 (5831), 1625-1628 (2007)
PUBMED 17569867
REFERENCE 5 (bases 1 to 2115)
AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H.
TITLE The Release 5.1 annotation of Drosophila melanogaster
heterochromatin
JOURNAL Science 316 (5831), 1586-1591 (2007)
PUBMED 17569856
REMARK Erratum:[Science. 2007 Sep 7;317(5843):1325]
REFERENCE 6 (bases 1 to 2115)
AUTHORS Quesneville,H., Bergman,C.M., Andrieu,O., Autard,D., Nouaud,D.,
Ashburner,M. and Anxolabehere,D.
TITLE Combined evidence annotation of transposable elements in genome
sequences
JOURNAL PLoS Comput Biol 1 (2), 166-175 (2005)
PUBMED 16110336
REFERENCE 7 (bases 1 to 2115)
AUTHORS Hoskins,R.A., Smith,C.D., Carlson,J.W., Carvalho,A.B., Halpern,A.,
Kaminker,J.S., Kennedy,C., Mungall,C.J., Sullivan,B.A.,
Sutton,G.G., Yasuhara,J.C., Wakimoto,B.T., Myers,E.W.,
Celniker,S.E., Rubin,G.M. and Karpen,G.H.
TITLE Heterochromatic sequences in a Drosophila whole-genome shotgun
assembly
JOURNAL Genome Biol 3 (12), RESEARCH0085 (2002)
PUBMED 12537574
REFERENCE 8 (bases 1 to 2115)
AUTHORS Kaminker,J.S., Bergman,C.M., Kronmiller,B., Carlson,J.,
Svirskas,R., Patel,S., Frise,E., Wheeler,D.A., Lewis,S.E.,
Rubin,G.M., Ashburner,M. and Celniker,S.E.
TITLE The transposable elements of the Drosophila melanogaster
euchromatin: a genomics perspective
JOURNAL Genome Biol 3 (12), RESEARCH0084 (2002)
PUBMED 12537573
REFERENCE 9 (bases 1 to 2115)
AUTHORS Misra,S., Crosby,M.A., Mungall,C.J., Matthews,B.B., Campbell,K.S.,
Hradecky,P., Huang,Y., Kaminker,J.S., Millburn,G.H., Prochnik,S.E.,
Smith,C.D., Tupy,J.L., Whitfied,E.J., Bayraktaroglu,L.,
Berman,B.P., Bettencourt,B.R., Celniker,S.E., de Grey,A.D.,
Drysdale,R.A., Harris,N.L., Richter,J., Russo,S., Schroeder,A.J.,
Shu,S.Q., Stapleton,M., Yamada,C., Ashburner,M., Gelbart,W.M.,
Rubin,G.M. and Lewis,S.E.
TITLE Annotation of the Drosophila melanogaster euchromatic genome: a
systematic review
JOURNAL Genome Biol 3 (12), RESEARCH0083 (2002)
PUBMED 12537572
REFERENCE 10 (bases 1 to 2115)
AUTHORS Celniker,S.E., Wheeler,D.A., Kronmiller,B., Carlson,J.W.,
Halpern,A., Patel,S., Adams,M., Champe,M., Dugan,S.P., Frise,E.,
Hodgson,A., George,R.A., Hoskins,R.A., Laverty,T., Muzny,D.M.,
Nelson,C.R., Pacleb,J.M., Park,S., Pfeiffer,B.D., Richards,S.,
Sodergren,E.J., Svirskas,R., Tabor,P.E., Wan,K., Stapleton,M.,
Sutton,G.G., Venter,C., Weinstock,G., Scherer,S.E., Myers,E.W.,
Gibbs,R.A. and Rubin,G.M.
TITLE Finishing a whole-genome shotgun: release 3 of the Drosophila
melanogaster euchromatic genome sequence
JOURNAL Genome Biol 3 (12), RESEARCH0079 (2002)
PUBMED 12537568
REFERENCE 11 (bases 1 to 2115)
AUTHORS Adams,M.D., Celniker,S.E., Holt,R.A., Evans,C.A., Gocayne,J.D.,
Amanatides,P.G., Scherer,S.E., Li,P.W., Hoskins,R.A., Galle,R.F.,
George,R.A., Lewis,S.E., Richards,S., Ashburner,M., Henderson,S.N.,
Sutton,G.G., Wortman,J.R., Yandell,M.D., Zhang,Q., Chen,L.X.,
Brandon,R.C., Rogers,Y.H., Blazej,R.G., Champe,M., Pfeiffer,B.D.,
Wan,K.H., Doyle,C., Baxter,E.G., Helt,G., Nelson,C.R., Gabor,G.L.,
Abril,J.F., Agbayani,A., An,H.J., Andrews-Pfannkoch,C., Baldwin,D.,
Ballew,R.M., Basu,A., Baxendale,J., Bayraktaroglu,L., Beasley,E.M.,
Beeson,K.Y., Benos,P.V., Berman,B.P., Bhandari,D., Bolshakov,S.,
Borkova,D., Botchan,M.R., Bouck,J., Brokstein,P., Brottier,P.,
Burtis,K.C., Busam,D.A., Butler,H., Cadieu,E., Center,A.,
Chandra,I., Cherry,J.M., Cawley,S., Dahlke,C., Davenport,L.B.,
Davies,P., de Pablos,B., Delcher,A., Deng,Z., Mays,A.D., Dew,I.,
Dietz,S.M., Dodson,K., Doup,L.E., Downes,M., Dugan-Rocha,S.,
Dunkov,B.C., Dunn,P., Durbin,K.J., Evangelista,C.C., Ferraz,C.,
Ferriera,S., Fleischmann,W., Fosler,C., Gabrielian,A.E., Garg,N.S.,
Gelbart,W.M., Glasser,K., Glodek,A., Gong,F., Gorrell,J.H., Gu,Z.,
Guan,P., Harris,M., Harris,N.L., Harvey,D., Heiman,T.J.,
Hernandez,J.R., Houck,J., Hostin,D., Houston,K.A., Howland,T.J.,
Wei,M.H., Ibegwam,C., Jalali,M., Kalush,F., Karpen,G.H., Ke,Z.,
Kennison,J.A., Ketchum,K.A., Kimmel,B.E., Kodira,C.D., Kraft,C.,
Kravitz,S., Kulp,D., Lai,Z., Lasko,P., Lei,Y., Levitsky,A.A.,
Li,J., Li,Z., Liang,Y., Lin,X., Liu,X., Mattei,B., McIntosh,T.C.,
McLeod,M.P., McPherson,D., Merkulov,G., Milshina,N.V., Mobarry,C.,
Morris,J., Moshrefi,A., Mount,S.M., Moy,M., Murphy,B., Murphy,L.,
Muzny,D.M., Nelson,D.L., Nelson,D.R., Nelson,K.A., Nixon,K.,
Nusskern,D.R., Pacleb,J.M., Palazzolo,M., Pittman,G.S., Pan,S.,
Pollard,J., Puri,V., Reese,M.G., Reinert,K., Remington,K.,
Saunders,R.D., Scheeler,F., Shen,H., Shue,B.C., Siden-Kiamos,I.,
Simpson,M., Skupski,M.P., Smith,T., Spier,E., Spradling,A.C.,
Stapleton,M., Strong,R., Sun,E., Svirskas,R., Tector,C., Turner,R.,
Venter,E., Wang,A.H., Wang,X., Wang,Z.Y., Wassarman,D.A.,
Weinstock,G.M., Weissenbach,J., Williams,S.M., WoodageT,
Worley,K.C., Wu,D., Yang,S., Yao,Q.A., Ye,J., Yeh,R.F.,
Zaveri,J.S., Zhan,M., Zhang,G., Zhao,Q., Zheng,L., Zheng,X.H.,
Zhong,F.N., Zhong,W., Zhou,X., Zhu,S., Zhu,X., Smith,H.O.,
Gibbs,R.A., Myers,E.W., Rubin,G.M. and Venter,J.C.
TITLE The genome sequence of Drosophila melanogaster
JOURNAL Science 287 (5461), 2185-2195 (2000)
PUBMED 10731132
REFERENCE 12 (bases 1 to 2115)
AUTHORS Celniker,S., Carlson,J., Wan,K., Pfeiffer,B., Frise,E., George,R.,
Hoskins,R., Stapleton,M., Pacleb,J., Park,S., Svirskas,R.,
Smith,E., Yu,C. and Rubin,G.
CONSRTM Berkeley Drosophila Genome Project
TITLE Drosophila melanogaster release 4 sequence
JOURNAL Unpublished
REFERENCE 13 (bases 1 to 2115)
CONSRTM NCBI Genome Project
TITLE Direct Submission
JOURNAL Submitted (20-DEC-2023) National Center for Biotechnology
Information, NIH, Bethesda, MD 20894, USA
REFERENCE 14 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (13-DEC-2023) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 15 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (19-OCT-2022) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 16 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (20-APR-2020) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 17 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (22-APR-2019) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 18 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (24-MAY-2018) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 19 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (07-DEC-2016) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 20 (bases 1 to 2115)
CONSRTM FlyBase
TITLE Direct Submission
JOURNAL Submitted (07-OCT-2015) FlyBase, Harvard University, Biological
Laboratories, 16 Divinity Ave, Cambridge, MA 02138, USA
REFERENCE 21 (bases 1 to 2115)
AUTHORS Celniker,S., Carlson,J., Kennedy,C., Wan,K., Frise,E., Hoskins,R.,
Park,S., Svirskas,R. and Karpen,G.
TITLE Direct Submission
JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project,
Lawrence Berkeley National Laboratory, One #Cyclotron RoadOne
Cyclotron Road, MS 64-121, Berkeley, CA 94720, USA
REMARK Direct Submission
REFERENCE 22 (bases 1 to 2115)
AUTHORS Celniker,S., Carlson,J., Wan,K., Frise,E., Hoskins,R., Park,S.,
Svirskas,R. and Rubin,G.
TITLE Direct Submission
JOURNAL Submitted (10-AUG-2006) Berkeley Drosophila Genome Project,
Lawrence Berkeley National Laboratory, One Cyclotron Road, MS
64-121, Berkeley, CA 94720, USA
REMARK Direct Submission
REFERENCE 23 (bases 1 to 2115)
AUTHORS Smith,C.D., Shu,S., Mungall,C.J. and Karpen,G.H.
CONSRTM Drosophila Heterochromatin Genome Project
TITLE Direct Submission
JOURNAL Submitted (01-AUG-2006) Drosophila Heterochromatin Genome Project,
Ernest Orlando Lawrence Berkeley National Laboratory, 1 Cyclotron
Road, Mailstop 64-121, Berkeley, CA 94720, USA
REFERENCE 24 (bases 1 to 2115)
AUTHORS Adams,M.D., Celniker,S.E., Gibbs,R.A., Rubin,G.M. and Venter,C.J.
TITLE Direct Submission
JOURNAL Submitted (21-MAR-2000) Celera Genomics, 45 West Gude Drive,
Rockville, MD 20850, USA
COMMENT REVIEWED REFSEQ: This record has been curated by FlyBase. This
record is derived from an annotated genomic sequence (NT_033777).
On May 8, 2012 this sequence version replaced NM_169528.1.
##Genome-Annotation-Data-START##
Annotation Provider :: FlyBase
Annotation Status :: Full annotation
Annotation Version :: Release 6.54
URL :: http://flybase.org
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..2115
/organism="Drosophila melanogaster"
/mol_type="mRNA"
/db_xref="taxon:7227"
/chromosome="3R"
/genotype="y[1]; Gr22b[1] Gr22d[1] cn[1] CG33964[R4.2]
bw[1] sp[1]; LysC[1] MstProx[1] GstD5[1] Rh6[1]"
gene 1..2115
/gene="sqd"
/locus_tag="Dmel_CG16901"
/old_locus_tag="Dmel_CR33328"
/gene_synonym="BcDNA:GM03761; CG16901; CG17791; CR33328;
Dmel\CG16901; fs(3)00048; hnRNP 1; hnRNP A; Hrb87;
Hrb87Fb; hrp40; Hrp40; HRP40; l(3)EP3631; l(3)j4B4;
l(3)j6E3; l(3)j8E7; Rbp3; rrm3; RRM3; Sqd; SQD; Squid"
/note="squid"
/map="87F5-87F6"
/db_xref="FLYBASE:FBgn0263396"
/db_xref="GeneID:41666"
CDS 386..1420
/gene="sqd"
/locus_tag="Dmel_CG16901"
/old_locus_tag="Dmel_CR33328"
/gene_synonym="BcDNA:GM03761; CG16901; CG17791; CR33328;
Dmel\CG16901; fs(3)00048; hnRNP 1; hnRNP A; Hrb87;
Hrb87Fb; hrp40; Hrp40; HRP40; l(3)EP3631; l(3)j4B4;
l(3)j6E3; l(3)j8E7; Rbp3; rrm3; RRM3; Sqd; SQD; Squid"
/note="CG16901 gene product from transcript CG16901-RB;
CG16901-PB; sqd-PB; RNA-binding protein 3;
heterogeneous-nuclear-ribonucleoprotein-87Fb; lethal (3)
j4B4; squid"
/codon_start=1
/product="squid, isoform B"
/protein_id="NP_731825.1"
/db_xref="FLYBASE:FBpp0082320"
/db_xref="GeneID:41666"
/db_xref="FLYBASE:FBgn0263396"
/translation="MAENKQVDTEINGEDFTKDVTADGPGSENGDAGAAGSTNGSSDN
QSAASGQRDDDRKLFVGGLSWETTEKELRDHFGKYGEIESINVKTDPQTGRSRGFAFI
VFTNTEAIDKVSAADEHIINSKKVDPKKAKARHGKIFVGGLTTEISDEEIKTYFGQFG
NIVEVEMPFDKQKSQRKGFCFITFDSEQVVTDLLKTPKQKIAGKEVDVKRATPKPENQ
MMGGMRGGPRGGMRGGRGGYGGRGGYNNQWDGQGSYGGYGGGYGGYGAGGYGDYYAGG
YYNGYDYGYDGYGYGGGFEGNGYGGGGGGNMGGGRGGPRGGGGPKGGGGFNGGKQRGG
GGRQQRHQPY"
ORIGIN
1 ataaatcaaa gctgccatac tgcaagcaga caagtcacgc gcccatttag ctccttatat
61 aggcttattt ggggtggtat cgtacagaaa atcccaattt aatccttggc aaatgtatag
121 ctaacaatct ccaggtagag caagcaaata caatacaaat atttaccaaa ataataccaa
181 atcgacttga ctgggaaaac atcaaggtgg caacgccgca cccatataca cacgctgtcg
241 tttgcattta tcattttccg gtcgtcattt cattcgtacg cgcgactttt tggcgagtgt
301 gtataaaaat ctccggctct gcgtaaaaaa cgaatatcgt gctgcctagc ccccgaaatt
361 agtagatcag tcgaaaacac acaaaatggc cgagaacaag caagtggata cagaaataaa
421 cggcgaggat ttcaccaagg acgtgactgc cgacggtccg ggatctgaaa atggtgatgc
481 gggcgccgcc ggctcgacca acggcagttc ggacaaccaa tcggccgcat ccggccagcg
541 ggacgacgac aggaaactgt ttgtcggtgg tctgagctgg gaaacgactg agaaggaact
601 ccgcgatcac ttcggcaaat atggcgagat cgagagcatc aatgtcaaga cagatcccca
661 gaccggtcgg tcccgaggat tcgccttcat cgtgtttaca aacaccgagg ccattgacaa
721 agtcagcgcc gcggatgagc acataatcaa cagcaagaag gtcgatccca agaaggccaa
781 ggccaggcac ggcaagatct ttgtcggcgg cctcaccaca gagatcagcg atgaggagat
841 taagacctac tttggacagt tcggcaatat cgtcgaggtg gagatgccat tcgacaagca
901 aaagtcgcag cgcaaaggat tctgcttcat caccttcgat tcggagcagg tggtgacaga
961 tttgctgaag acgcccaagc agaagatcgc cggcaaggag gtcgatgtta agcgtgcgac
1021 gcccaagccg gagaaccaga tgatgggcgg tatgcgtggt ggaccacgcg gtggtatgcg
1081 cggcggacgc ggtggctacg gaggacgagg tggctacaac aaccagtggg acggacaggg
1141 atcatacggc ggctatggcg gcggctacgg cggatatggt gccggtggtt atggcgacta
1201 ctatgccggc ggctactata atggatatga ctacggttat gacggctacg gttacggcgg
1261 cggctttgag ggtaacggct acggcggagg cggtggtggc aatatgggcg gcggtcgcgg
1321 tggaccccgc ggcggcggcg gccccaaagg cggtggcggt tttaacggtg gcaagcagcg
1381 cggaggcggt ggacgccagc agcggcatca gccctactaa aaagtgggca gggggcgtgg
1441 gcattgggta tctcgcattc tccggataac tgcaaactat ttgaatttta cctagtttag
1501 tttgttatgc attactacaa gaagcaacac acatctctgc aacaacacca tctgggtaac
1561 cgcatatata catacgccgt tgtatatatc tgtatgaaag aaatgaggaa aaaaggaaat
1621 gaatagactg gctggctggg agcaataata tcaacatcag caaccttaac acacctttac
1681 acacttgatg tgtagcacca ttccaacaac agcatcatac gcagctaaaa aacatcattt
1741 atacaataca aggcaaacca caaagcaaaa caagaaaaaa aaaaaacaac acaaatagat
1801 acacacacat agttaggcat acacatgtaa tttttcagca agtggctaat ttttcatagc
1861 cacacgctca ttaagccgac aaaccaacca accaaacaac caaccaaccg cccaccaaac
1921 aacccttcaa cccgtgcaaa accacaagac aacattgcag ggaaacgtgg caaacaacat
1981 ttgccaaact aactgctgtg caatgctcac gttgtctgtg tgtcgaaact aatttgtttt
2041 tctaatgtag tcccatacat tatgcgaggt aattgtttaa cgcgtcagta gagcacagga
2101 tgtcggagag atagg
//