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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_008033.2 RefSeqGene
- Range
-
5001..237030
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
NM_001190709.2 → NP_001177638.1 collagen alpha-1(XI) chain isoform E preproprotein
Status: REVIEWED
- Description
- Transcript Variant: This variant (E, previously referred to as C) does not utilize either alternate exon 6A or 6B. The encoded isoform (E, previously referred to as C) is shorter than isoform A. There are no publicly available transcripts representing this variant; it is supported by mRNA annotation on DNA accession AF101112.1, protein AAF04724.1, submitted by the authors of PMID:10486316.
- Source sequence(s)
-
AB208844, AC093150, AC099567, BU159588, BX476821, CA448616, J04177
- Consensus CDS
-
CCDS53348.1
- UniProtKB/Swiss-Prot
-
P12107
- UniProtKB/TrEMBL
-
Q59HB5
- Related
- ENSP00000302551.6, ENST00000353414.8
- Conserved Domains (3) summary
-
- pfam01391
Location:802 → 861
- Collagen; Collagen triple helix repeat (20 copies)
- smart00210
Location:38 → 229
- TSPN; Thrombospondin N-terminal -like domains
- pfam01410
Location:1539 → 1765
- COLFI; Fibrillar collagen C-terminal domain
-
NM_001854.4 → NP_001845.3 collagen alpha-1(XI) chain isoform A preproprotein
See identical proteins and their annotated locations for NP_001845.3
Status: REVIEWED
- Description
- Transcript Variant: This variant (A) utilizes alternate exon 6, designated exon 6A. The encoded isoform (A) has a 39 aa region specified by exon 6A, that differs from the corresponding 51 aa region encoded by exon 6B in isoform B.
- Source sequence(s)
-
AB208844, AC093150, AC099567, BU159588, BX476821, J04177
- Consensus CDS
-
CCDS778.1
- UniProtKB/Swiss-Prot
-
P12107
- UniProtKB/TrEMBL
-
Q59HB5
- Related
- ENSP00000359114.3, ENST00000370096.9
- Conserved Domains (3) summary
-
- pfam01391
Location:841 → 900
- Collagen; Collagen triple helix repeat (20 copies)
- smart00210
Location:38 → 229
- TSPN; Thrombospondin N-terminal -like domains
- pfam01410
Location:1578 → 1804
- COLFI; Fibrillar collagen C-terminal domain
-
NM_080629.3 → NP_542196.2 collagen alpha-1(XI) chain isoform B preproprotein
See identical proteins and their annotated locations for NP_542196.2
Status: REVIEWED
- Description
- Transcript Variant: This variant (B) utilizes alternate exon 6, designated exon 6B, and encodes the longest isoform (B). There are no publicly available transcripts representing this variant; it is supported by mRNA annotation on DNA accession AF101112.1, protein AAF04726.1, submitted by the authors of PMID:10486316.
- Source sequence(s)
-
AB208844, AC093150, AC099567, BU159588, BX476821, J04177
- UniProtKB/Swiss-Prot
-
P12107
- UniProtKB/TrEMBL
-
Q59HB5
- Related
- ENSP00000351163.2, ENST00000358392.6
- Conserved Domains (3) summary
-
- pfam01391
Location:853 → 912
- Collagen; Collagen triple helix repeat (20 copies)
- smart00210
Location:38 → 229
- TSPN; Thrombospondin N-terminal -like domains
- pfam01410
Location:1590 → 1816
- COLFI; Fibrillar collagen C-terminal domain
-
NM_080630.4 → NP_542197.3 collagen alpha-1(XI) chain isoform C preproprotein
See identical proteins and their annotated locations for NP_542197.3
Status: REVIEWED
- Description
- Transcript Variant: This variant (C, previously referred to as D) includes alternate exon 6A but lacks two other alternate exons, resulting in the loss of an in-frame segment in the coding region, compared to variant A. The encoded isoform (C, previously referred to as D) is shorter than isoform A.
- Source sequence(s)
-
AC093150, AC099567, BC117697, CA448616
- Consensus CDS
-
CCDS780.2
- UniProtKB/Swiss-Prot
-
P12107
- Related
- ENSP00000426533.1, ENST00000512756.5
- Conserved Domains (3) summary
-
- pfam01391
Location:725 → 784
- Collagen; Collagen triple helix repeat (20 copies)
- smart00210
Location:38 → 229
- TSPN; Thrombospondin N-terminal -like domains
- pfam01410
Location:1462 → 1688
- COLFI; Fibrillar collagen C-terminal domain
RNA
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NR_134980.2 RNA Sequence
Status: REVIEWED
- Description
- Transcript Variant: This variant (F) contains an alternate internal exon compared to variant A. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
- Source sequence(s)
-
AB208844, AC093150, AC099567, BC117697, CA448616
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.p13 Primary Assembly
Genomic
-
NC_000001.11 Reference GRCh38.p13 Primary Assembly
- Range
-
102876473..103108580 complement
- Download
- GenBank, FASTA, Sequence Viewer (Graphics)
mRNA and Protein(s)
-
XM_017000334.1 → XP_016855823.1 collagen alpha-1(XI) chain isoform X1
-
XM_017000335.1 → XP_016855824.1 collagen alpha-1(XI) chain isoform X2
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XM_017000337.1 → XP_016855826.1 collagen alpha-1(XI) chain isoform X4
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XM_017000336.1 → XP_016855825.1 collagen alpha-1(XI) chain isoform X3