HsaINT0039634 @ hg19
Intron Retention
Gene
ENSG00000114270 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:2214]
Coordinates
chr3:48603069-48603748:-
Coord C1 exon
chr3:48603700-48603748
Coord A exon
chr3:48603102-48603699
Coord C2 exon
chr3:48603069-48603101
Length
598 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TCCCTCTCTGCCCCCTCTAGCCT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GAGGATGACATCCGGGGCTTTGTGCGCCAAGAGATGAGTCAGCACTGTG
Seq A exon
GTGAGTGGTGCCCAGCCCGCAGTCTCCCACTCCACCCCAGCACCCTAGGCAAGGGCAGGCAGGCCCCTAGAACTTACAGGGCAAGCAGTCAAGAAGATGGGGGGATGGATGGATACACAGAAGGACACATGTGCTGCAGGACTGACACATGACATGTGTCCCCAGTGGAGGGAGACACACAGGCAGATGAGGATTGCCATGCAGTGCTCTCAGATGTCCAGCTTGGCTGTGTGGGGAGTGGGATGATGGTGGGAGCAGAGCTGGTCCCCTTGGGCCTGACCTGGACCCGGTGGGAGGGGCATCAGAGTGAAGCTGTCTCTTCCCGTCTCTGTCTGCACCACCTGCCTGTTTCTGTGTCTGGCCTGCTTCTGTCTCTTGCCTTTTGTTGGCCTGTTCCCAACTTCCCTCTCCTCTGCCTTCTTCTCTTTTTCCATCTCTCTATCTACCTCCCACCCTCTCTCTTCCTCTCTCTCCTGTTACCCTCTCCTGCTATCTCTTTGTGTATCTCTACCCCTCTGCCTGTGTGTCTCTGTCTGTCTCTCCATCTTCCCATCCTTCTCTCTGTCATTGTCTCTCTATCCCTCTCTGCCCCCTCTAG
Seq C2 exon
CCTGCCAGGGCCAGTTCATCGCATCTGGATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114270-COL7A1:NM_000094:113
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.706 A=NA C2=0.583
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)