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These reference sequences exist independently of genome builds. Explain
These reference sequences are curated independently of the genome
annotation cycle, so their versions may not match the RefSeq versions in the current
genome build. Identify version mismatches by comparing the version of the RefSeq in
this section to the one reported in Genomic regions,
transcripts, and products above.
Genomic
-
NG_011589.1 RefSeqGene
- Range
-
5002..34775
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
NM_001163771.2 → NP_001157243.1 collagen alpha-2(XI) chain isoform 4 precursor
Status: REVIEWED
- Description
- Transcript Variant: This variant (4) lacks several exons at the 3' end and has a distinct 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (4) has a distinct C-terminus and is considerably shorter than isoform 1.
- Source sequence(s)
-
AL645940, BC053886
- Consensus CDS
-
CCDS54992.1
- UniProtKB/TrEMBL
-
A0A140T9A1
- Related
- ENSP00000378620.1, ENST00000395194.1
- Conserved Domains (1) summary
-
- smart00210
Location:31 → 213
- TSPN; Thrombospondin N-terminal -like domains
-
NM_001424108.1 → NP_001411037.1 collagen alpha-2(XI) chain isoform 5 preproprotein
Status: REVIEWED
- Source sequence(s)
-
AL645940
- UniProtKB/TrEMBL
-
A0A140T9N1
-
NM_001424109.1 → NP_001411038.1 collagen alpha-2(XI) chain isoform 6
Status: REVIEWED
- Source sequence(s)
-
AL645940
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
NM_001424110.1 → NP_001411039.1 collagen alpha-2(XI) chain isoform 7
Status: REVIEWED
- Source sequence(s)
-
AL645940
-
NM_001424111.1 → NP_001411040.1 collagen alpha-2(XI) chain isoform 7
Status: REVIEWED
- Source sequence(s)
-
AL645940
-
NM_001424112.1 → NP_001411041.1 collagen alpha-2(XI) chain isoform 8
Status: REVIEWED
- Source sequence(s)
-
AL645940
-
NM_080679.3 → NP_542410.2 collagen alpha-2(XI) chain isoform 3 preproprotein
Status: REVIEWED
- Description
- Transcript Variant: This variant (3) lacks three alternate in-frame exons, compared to variant 1, resulting in a shorter protein (isoform 3), compared to isoform 1. There are no publicly available human transcripts representing the full-length exon combination of this variant, but the region of variation is supported by experimental data in PMIDs 8663204 and 8838804, by homology data in mouse, and the full-length sequence is represented in accession U32169.1:AAC50215.1.
- Source sequence(s)
-
AL645940
- UniProtKB/TrEMBL
- A0A0G2JL78, A0A140TA54
- Conserved Domains (3) summary
-
- pfam01391
Location:547 → 603
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1433 → 1628
- COLFI; Fibrillar collagens C-terminal domain
- smart00210
Location:31 → 213
- TSPN; Thrombospondin N-terminal -like domains
-
NM_080680.3 → NP_542411.2 collagen alpha-2(XI) chain isoform 1 preproprotein
Status: REVIEWED
- Description
- Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). There are no publicly available human transcripts representing the full-length exon combination of this variant, but the region of variation is supported by experimental data in PMIDs 8663204 and 8838804, by homology data in mouse, and the full-length sequence is represented in accession U32169.1:AAC50214.1.
- Source sequence(s)
-
AL645940
- UniProtKB/TrEMBL
- A0A0C4DFS1, A0A1U9X7J8
- Related
- ENSP00000339915.2, ENST00000341947.7
- Conserved Domains (5) summary
-
- pfam01391
Location:654 → 710
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1540 → 1735
- COLFI; Fibrillar collagens C-terminal domain
- smart00210
Location:31 → 213
- TSPN; Thrombospondin N-terminal -like domains
- cl26386
Location:1264 → 1437
- DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III
- cl28033
Location:361 → 703
- Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region
-
NM_080681.3 → NP_542412.2 collagen alpha-2(XI) chain isoform 2 preproprotein
Status: REVIEWED
- Description
- Transcript Variant: This variant (2) lacks two alternate in-frame exons, compared to variant 1, resulting in a shorter protein (isoform 2), compared to isoform 1. There are no publicly available human transcripts representing the full-length exon combination of this variant, but the region of variation is supported by experimental data in PMIDs 8663204 and 8838804, by homology data in mouse, and the full-length sequence is represented in accession U32169.1:AAC50213.1.
- Source sequence(s)
-
AL645940
- Consensus CDS
-
CCDS43452.1
- UniProtKB/TrEMBL
- A0A140T9N1, Q4VXY6
- Related
- ENSP00000363840.4, ENST00000374708.8
- Conserved Domains (3) summary
-
- pfam01391
Location:568 → 624
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1454 → 1649
- COLFI; Fibrillar collagens C-terminal domain
- smart00210
Location:31 → 213
- TSPN; Thrombospondin N-terminal -like domains
RNA
-
NR_187605.1 RNA Sequence
Status: REVIEWED
- Source sequence(s)
-
AL645940
The following sections contain reference sequences that belong to a
specific genome build. Explain
This section includes genomic Reference
Sequences (RefSeqs) from all assemblies on which this gene is annotated, such as
RefSeqs for chromosomes and scaffolds (contigs) from both reference and alternate
assemblies. Model RNAs and proteins are also reported here.
Reference GRCh38.p14 Primary Assembly
Genomic
-
NC_000006.12 Reference GRCh38.p14 Primary Assembly
- Range
-
33162694..33193519 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_047418183.1 → XP_047274139.1 collagen alpha-2(XI) chain isoform X7
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_017010250.2 → XP_016865739.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A0C4DFS1, A0A1U9X7J8
- Conserved Domains (5) summary
-
- pfam01391
Location:654 → 710
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1540 → 1735
- COLFI; Fibrillar collagens C-terminal domain
- smart00210
Location:31 → 213
- TSPN; Thrombospondin N-terminal -like domains
- cl26386
Location:1264 → 1437
- DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III
- cl28033
Location:361 → 703
- Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region
-
XM_011514300.3 → XP_011512602.1 collagen alpha-2(XI) chain isoform X4
- Conserved Domains (2) summary
-
- pfam01391
Location:356 → 412
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1242 → 1437
- COLFI; Fibrillar collagens C-terminal domain
-
XM_011514299.3 → XP_011512601.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
- Conserved Domains (2) summary
-
- pfam01391
Location:416 → 472
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1302 → 1497
- COLFI; Fibrillar collagens C-terminal domain
-
XM_017010251.3 → XP_016865740.1 collagen alpha-2(XI) chain isoform X6
-
XM_011514302.3 → XP_011512604.1 collagen alpha-2(XI) chain isoform X5
- Conserved Domains (2) summary
-
- pfam01391
Location:283 → 339
- Collagen; Collagen triple helix repeat (20 copies)
- smart00038
Location:1169 → 1364
- COLFI; Fibrillar collagens C-terminal domain
Reference GRCh38.p14 ALT_REF_LOCI_2
Genomic
-
NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2
- Range
-
4574202..4605026 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054329736.1 → XP_054185711.1 collagen alpha-2(XI) chain isoform X8
- UniProtKB/Swiss-Prot
- A6NLX2, E7ER90, P13942, Q07751, Q13271, Q13272, Q13273, Q5JP94, Q5SUI8, Q7Z6C3, Q99866, Q9UIP9
- UniProtKB/TrEMBL
-
A0A1U9X7J1
Reference GRCh38.p14 ALT_REF_LOCI_3
Genomic
-
NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3
- Range
-
4406193..4437018 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054330229.1 → XP_054186204.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A0C4DFS1, A0A1U9X7J8
-
XM_054330232.1 → XP_054186207.1 collagen alpha-2(XI) chain isoform X4
-
XM_054330231.1 → XP_054186206.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054330234.1 → XP_054186209.1 collagen alpha-2(XI) chain isoform X6
-
XM_054330233.1 → XP_054186208.1 collagen alpha-2(XI) chain isoform X5
Reference GRCh38.p14 ALT_REF_LOCI_4
Genomic
-
NT_167246.2 Reference GRCh38.p14 ALT_REF_LOCI_4
- Range
-
4582167..4613046 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054330520.1 → XP_054186495.1 collagen alpha-2(XI) chain isoform X11
- UniProtKB/TrEMBL
-
A0A140TA54
-
XM_054330519.1 → XP_054186494.1 collagen alpha-2(XI) chain isoform X10
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054330517.1 → XP_054186492.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A140TA43, A0A1U9X7J8
-
XM_054330518.1 → XP_054186493.1 collagen alpha-2(XI) chain isoform X9
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054330522.1 → XP_054186497.1 collagen alpha-2(XI) chain isoform X4
-
XM_054330521.1 → XP_054186496.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054330524.1 → XP_054186499.1 collagen alpha-2(XI) chain isoform X6
-
XM_054330523.1 → XP_054186498.1 collagen alpha-2(XI) chain isoform X5
Reference GRCh38.p14 ALT_REF_LOCI_5
Genomic
-
NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5
- Range
-
4598652..4629530 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054330768.1 → XP_054186743.1 collagen alpha-2(XI) chain isoform X14
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054330766.1 → XP_054186741.1 collagen alpha-2(XI) chain isoform X13
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054330764.1 → XP_054186739.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A0G2JL35, A0A1U9X7J8
-
XM_054330765.1 → XP_054186740.1 collagen alpha-2(XI) chain isoform X12
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054330770.1 → XP_054186745.1 collagen alpha-2(XI) chain isoform X4
-
XM_054330769.1 → XP_054186744.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054330772.1 → XP_054186747.1 collagen alpha-2(XI) chain isoform X6
-
XM_054330771.1 → XP_054186746.1 collagen alpha-2(XI) chain isoform X5
Reference GRCh38.p14 ALT_REF_LOCI_6
Genomic
-
NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6
- Range
-
4357098..4387977 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054331004.1 → XP_054186979.1 collagen alpha-2(XI) chain isoform X17
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054331003.1 → XP_054186978.1 collagen alpha-2(XI) chain isoform X16
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054331001.1 → XP_054186976.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A0G2JL35, A0A1U9X7J8
-
XM_054331002.1 → XP_054186977.1 collagen alpha-2(XI) chain isoform X15
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054331006.1 → XP_054186981.1 collagen alpha-2(XI) chain isoform X4
-
XM_054331005.1 → XP_054186980.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054331008.1 → XP_054186983.1 collagen alpha-2(XI) chain isoform X6
-
XM_054331007.1 → XP_054186982.1 collagen alpha-2(XI) chain isoform X5
Reference GRCh38.p14 ALT_REF_LOCI_7
Genomic
-
NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7
- Range
-
4611340..4639206 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
Alternate T2T-CHM13v2.0
Genomic
-
NC_060930.1 Alternate T2T-CHM13v2.0
- Range
-
32984047..33014927 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_054354226.1 → XP_054210201.1 collagen alpha-2(XI) chain isoform X20
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054354224.1 → XP_054210199.1 collagen alpha-2(XI) chain isoform X19
- UniProtKB/TrEMBL
-
A0A140T9I7
-
XM_054354222.1 → XP_054210197.1 collagen alpha-2(XI) chain isoform X1
- UniProtKB/TrEMBL
- A0A0C4DFS1, A0A1U9X7J8
-
XM_054354223.1 → XP_054210198.1 collagen alpha-2(XI) chain isoform X18
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054354228.1 → XP_054210203.1 collagen alpha-2(XI) chain isoform X4
-
XM_054354227.1 → XP_054210202.1 collagen alpha-2(XI) chain isoform X3
- UniProtKB/TrEMBL
-
A0A1U9X7J8
-
XM_054354230.1 → XP_054210205.1 collagen alpha-2(XI) chain isoform X6
-
XM_054354229.1 → XP_054210204.1 collagen alpha-2(XI) chain isoform X5