HsaINT0039174 @ hg19
Intron Retention
Gene
ENSG00000188153 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:2207]
Coordinates
chrX:107811989-107814696:+
Coord C1 exon
chrX:107811989-107812051
Coord A exon
chrX:107812052-107814642
Coord C2 exon
chrX:107814643-107814696
Length
2591 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTATTTTTAACTCCTTCTAGGGA
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGAATGCCAGGCCACGATGGGGCCCCAGGACCTCAAGGTATTCCCGGATGCAATGGAACCAAG
Seq A exon
GTGAGATCCATCCATTTAATCTTGGGTAGTATACTTGACAATAATTAACTTAAAAACCTAAAGAAATCAATATGAAGAATGTAGAAGAAGGGATATAGTGTCTTCAGGTCTTGGCTATTACATAAAGTATGCTCTGACTATAATTTTCTATATATTGAACTATCAATAATTTCATTAAACATGTATAATTAGCTGGGATATTGCATTGGGTTAAAGATTACTTACCAAACCCTTTTTTGACTTTAGCATAAAGTAGGATGAGAATTAAAACGAAATTAGGATATATATGTTTCAAATATTATATCAATTGTTGAAAGTAATACTTCTGAATGTCATTCATTTGCTTTGCCATTATTAAAAAACTAGGTACAATTTATGTTTTCAAATATTTCATGTTTTTAAGATTTTTTAACACGCCGAATAACTTCCTTAAGAAAAATCTTAAAAAATTATATGTAATACAGCACATCCGTTTTTACTATAAACTGTCAGTATGAAACCTGAAACTTCTTCATCAGCAAAGATGATACATTTAACAATTTTAAATAACCCTAACTTTAGATATAGCAAACATTTTTTTTTCTGATCCAATGTTTCTTCTCTTTAGTCAACTGTTGGATTGAATATAAAGTAATAGATAATAAGAAAAAATGAGGAAAATTTGCTCTGCTTGTAAGCTTACAATATTATAGCCAATTCTTATTCCCTCCCCTTTCTCCTTTTCCTTTAGGTTAATGCAATATATTGTTATTCTCTGTATTTTCTTTTGGTATTTTCTGTTTTTCACATAATATTCTGTAAAACTATTCATAAAATACCTTAGGTCCTTCTTTCTTTCTTTCTTTGTTTTTGTTTGTTTTTTGTTTTTTGTTTTTTGAGACAGAGTCTTGCTCTGTTGCCCATGCTGGAGTGCAATGTCACGATCTCGGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGCAGCTGGGATTACAGGCACGCACCACAATGCCCAGCTAATTGTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGGTCAGGCTGGTCTCGAATTCCTGACCTCTTGATCCGCCTGCCTCAGCCTCTCAAAGTGCTGGGATTACAGGTGCGAGCCACCGCGCCCGGCCAGATCTTTCTAACTAATGGCATATGTCAGATTTTATATAGGGCATATTTTTAAAATAACTTGAACAACTATTTTGCATTACAGTGGCCATATTTTGTGATAATTACTGTACTCTATACTTGAGGCAGTACAGTTCTTTTCATCTCCAGTATTTCTTCAGGTCAATGTAACCCTTGTCAATAATAATAATTTTTAAAAAAAATTTTGGATTCATGAGGACTAATCGTGTTCTTCATTTTAGCTAGGGCAACCTTAAAGTGATAAGACCAATGTGGAGTTGGTTTGCCTGATACATTTCATGTTAAATTGGACTAAATTTTTGTGCCTCTTCTGGTTATTTGTTTATTTTTATTTACTTATTTATTTTTGCCAGTGTGCTTTAAGAAACAAACAGACCACTAACCAAAGTTTCAAATTTGAAGGGCCAATGTATCTATAATCAGTACAGTGTGCTATATGATTAAAGGGAGCATTGATTAACTTGTGTTTCAGGCTTCCAATTATGTGAGTAACAAATTTTAAACAAATTAAATTGATTTATTATGCATATTTTTAAAGTCTGAATGCTTTTCTTATATTTCTTACTATGTAAGTAAAAGAATGAACTTTAAAGTTGGAGCCACAATGTATAGGTTTTTTTCTTTTTCTGTCTTTTAAACTTGATGTCTAGGCCACTTCCTTTCTCTCGGGACCTACTTTTTCCATGTGTAACAAGGTGGAGAGAAGGGTATTGGACTCACAAAGACACACAACAGTAGTAATTTTATTCTTTCAAACCTTCTGATGAAGTTGTTTCTAGGATTACCGTGGCATACAGGTATTTGAAAGGAGGTTGCTTTGGTGTTCTTCTACAGCAATTTCAGCTTTTGTTTTCTAAACCAAGTGTCCATATTAGTACTTTACAGTAGTGAGTGAGAAAAGCTGGGTGCCTAGAAAACATAATGACCTGCAATTGCTAGAACTATTGCTATTATTGTCCTCTTGGTGATATTAATGGCCTTCTTTCTTACCATCTTTTCCCCTTTACAAAAATAATTTGAAATAGTTTACAATAAAAGAAAAATGCAACAGAGCAGTTAAAATAAGAATCTATATAACACATGGGCAGGAAATGGGGCAGATCATTAACTATTAAATGTGATGATAGAATTTATGGCGTGATCGTCTCAAAATGTCTTTGTTGGAAGAAAAGAACTGAGGTAGATAATTTTTTTTCTTTACTTCTAATTGGGATAGATGAATTGGGATAAAAGTTGAATTGATATGGATAGTTGATATTGAAGTAATTGGAAAGTGAAGGCTAATGAACTTTTTGGCAATCTGGCATGTTTCAAAATGGCTTTTATAGAAATCTTTTCAAGAAGTCATATCTTGATGGTATAGTTATTCTTTGTTTCTTGTTCCTCCATGCTCTTTATTTTTAACTCCTTCTAG
Seq C2 exon
GGAGAACGTGGATTTCCAGGCAGTCCCGGTTTTCCTGGTTTACAGGGTCCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188153-COL4A5:NM_000495:6
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(13.6=57.1),PF0139113=Collagen=FE(30.3=100),PF0139113=Collagen=FE(31.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(12.5=55.6),PF0139113=Collagen=FE(27.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Genotype-Tissue Expression Project (GTEx)
- 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)