HsaINT0039177 @ hg19
Intron Retention
Gene
ENSG00000188153 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:2207]
Coordinates
chrX:107816804-107819202:+
Coord C1 exon
chrX:107816804-107816884
Coord A exon
chrX:107816885-107819139
Coord C2 exon
chrX:107819140-107819202
Length
2255 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CTTTACTCACTTTATAACAGGGC
3' ss Score
6.8
Exon sequences
Seq C1 exon
GGTGAACCAGGTAGTATAATTATGTCATCACTGCCAGGACCAAAGGGTAATCCAGGATATCCAGGTCCTCCTGGAATACAA
Seq A exon
GTAAGTATCCAGTGATTTTCTTTTTTTGCTATATTGATTAAACCAGAAGATTACAACAATCCCTCAACCTTTAGTACTCTCTGTTTTTGTCATAAAAATTATCATCAGATGTTTACTAGACATTACATGTACTTTCTACCTGAAAATAAAAGCAATCTGGACCAGGGAGAATTTTAACAACATCGGCTTCATTCTTTTGCCTTTCTATCCAGTGTTTTGGGGATTGGCAGCAGAAATAGGGTTCTATATTCTTATTCTTGTACTGTGGAGAGCAGTAGGGTCTTTTGTACATTTACAAAAGACCTAATTAAAAATAAAAATTATGGAAGTCCCATTGAATATATTAAGATATATCATTTGTAACACTATCAGTTATGCATAATATATGAACATATTTTGAAGGCTGAAGGAATACAGTTTATGCATGGTGAACATCAAATGTAATCTTAAGAAAAAAATTTTAGCCTACAGAAAACATGCATAGAGAGAGCAGTAACTTTTGAGTATAGATTAGGAGGTCAATTTCTTAGGGTTTATATTTCATGATAATCGAATCCTTTGCCAAAAATGAAAAATCAAAACTTCCTGGTAGTTTATCACTAAGATACAAGATTGGGGACTTTTTTCATTAGCTACCTTGTCATTCCTTACTTGATATCACCCATCCATAGTTTTTAAAATTCACTCAATCTTGCCCTTTATATTTTATAAATTGTTATGAAGTAATATTTGAAAATACAACAGAATACATGCAAAATATATGTATGTTATGAAGCATAACTATAAAGTGAACAACATTTAAGAGCTAGAAAATTACAAATAATTTTGAATCAACCTGTGTCCCCCTTGGTAATCAAATCCTTCTGCATTCCCCCAAGACATAGCTACCATCTGTGCCTTAAAAATAGCTTTATTATATATGCATATATTTCTAAGCAATAGAATATTTAGCTTTGCTTTATAAAATAATGTAATATTTATGTAGTTTTCTGCAACTTACTTTTTCTACTTGATATGCTAAGATTCATCCATATTATTGGATATGGCTTTAGTTCACTCTGTTTCACTTTCATATAACTTTCCATTTGTGGACATACTACCATTTGGTGTTTTTTGTTTTATGTGGTGTTTGTTGTTGTTGTTGTTGTTTTGAGATAGCATCTTGCACTCTTGCCCAGACCGGAGTGCAGTGGCATGATCATGGCTCACTGCAGTCTTAACCTCCTGGGCTTAAGCAATCCTCCCACCTCAGCTTCCTGAGTAGCTGGGACCATAGGTGCACATCACCACACCTGGCTACTTTTTGAAAATTTTCGTGGAGACAAGTTCTCACCATGTTGCCAAGGCTGGTCTCAAACATCTGAGCTCAAGTGATCCTCCTGCTTAGGCCTCCAAAAGTATGAGGATTACAGGTGTAAGCCTCTGTGCCCAGCCTACAATTTTTTCATTACAAAAAAAAATCCATGATTTATATCTAAGTATAGAATTGCTAGATTGTAGGCCAAATTTTCAGTTTTTAACATGCCAAATTATTCCATAACACTTGTATCATTCTCTTATAATTTATCCCAGTTCCTCTCATTTCCCTCTGTCTTTAATCTTATCTATTTTAAAATTAGAGAAGCTATCTTGAAAGTAGTAGCCTTTCCCTTCTCATTGGTAGCATAAAAGCCCTAACTAAATGCATACCTTTATCACTTTGTTTTGTAAATTTTCCTTATTATTTGTCTTATGTTTATTTACCACTTTAAACCACAAGTTTTCTTATAATTACTTAATCCTTTTATCCCTTTGCATTTTAAAATTTCACTTATAATATTGCTGAATGATAAAATTGTAGAGCAGAATTCCAATGACGACTGAAGTTTAAATGAAGTCTAAATTTCATCCATTTAGTTCTTTGTAAGATACAATTAGGGGGCCGGGCACAGTGGCTCACGCCTGTAATCCTGGCACTTTGGGAGGCCAAGTCATGAGATCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACGATAATTAGCCGGACCTGGTGGCAGGTGCCTGTAATCTCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGCGGAGGTCGCAGTGAGTTGAGATCATGCCATTGCACTCCAGCCTGGGCGACACAAGTGAGACTTTGTGTAAAAAAAGAAAAAATACAATAAGGGGCTTGTTTTTCTTTTTTTTCATCATTTTCTTTACTCACTTTATAACAG
Seq C2 exon
GGCCTACCTGGTCCCACTGGTATACCAGGGCCAATTGGTCCCCCAGGACCACCAGGTTTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188153-COL4A5:NM_000495:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=29.6),PF0139113=Collagen=PU(31.1=70.4)
A:
NA
C2:
PF0139113=Collagen=FE(32.8=100),PF0139113=Collagen=PU(18.6=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)