HsaINT0039130 @ hg38
Intron Retention
Gene
ENSG00000188153 | COL4A5
Description
collagen type IV alpha 5 chain [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chrX:108575910-108577987:+
Coord C1 exon
chrX:108575910-108575972
Coord A exon
chrX:108575973-108577951
Coord C2 exon
chrX:108577952-108577987
Length
1979 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CTTTTGTCTTCTCTTCTTAGGGC
3' ss Score
12.02
Exon sequences
Seq C1 exon
GGCCTACCTGGTCCCACTGGTATACCAGGGCCAATTGGTCCCCCAGGACCACCAGGTTTGATG
Seq A exon
GTAAGCTCTCTTCTTTAATTTAATTTCCCCCCCTTTCCTTTCTGACTTCTTTCAGGAATATTAATATTATTTATAATACTTGAAAACATAATGCATTCTCAACATTCATAATTTATAATTTTCTTATGTAAAGGTGACTTTACAATGATATGGTGAATAATATGCATTCTAAGTAATGGCTCCATTTTATAGATGGAAAAATGAGGTATATAAAAGGAAAGATTTACAATGAAATATTTTGTTGGTTGCTCTTGATGTATCAGTGTTGAAGTCAATTCTGGCCATTTCAGAAAGTCTTTTAAGGCAGTTTTCTAATCACTTGATGAAACATGTTTCTTCAAACTGCAATTGTTTGTTTAAGAAGAGCAAAAGCAGGGCTTCATAAAAAATATTGGCTCTCATTTCCTAGGCGCCTGGGACAAAACAGTAGAATTGGTGAGGGGAGTGATCACTATGCAATTGGTCACAGGTTTTTGTACCCCAAAAACTTCTACAGATCCTGAATGTGCAACCGGTTCTCTTACTTTACTAGCTCTGTAGTCACTCTTATTTTCTATCCTAGTAAATTCTAAGTATTTTTACTTCTGCAATACTTAGATTTCATTCAAGTCATGTTTTGGACTTACAGCTTTGCTGTTGCCCTCTTAAAAGGGCAAGAAAATTGTATTTCAGTAGAAGTAATTTCTCATGTGCCACTCTATCTCTCATCTACCATATATTTAAGTGACAGTTTTCATTATACCTTTATAGGTTGTACATTTTTGTTTGTGACAATTGGTCCTGCACTTTTGAGTGAAGGAAATAATGTTTGATAACTGCTAGAAGAATCTACCAGAAAAGATTGTGATTTCTGCTTTCCTGTAACTTTTTGGGGGAAGATGAGAAAACCCTTTTGTTTGTTTTAGTTGTAGACTTCATGCAAAGCATGAAACTATGGACTTTCGCACTTTTTCCTAATTCTGCTGTTGGAACATTGGTGCCCCTTGAGTATATTGTTACACCTTGAATTTCCTCAACCATTGTGGCCACTTAACCGATTCACTTTACGTTTCTGGATATTCCTTGAATTAACGCTAATTCAACAGGTGAAGCCAAATCTTAGAAATGCCACCAAGAGGCCAGGTGCTGTGGCTCATGCCTGTAATCCCGGCACTTTGGGAGGCTAAGGTGGGTGGATCACCTGAGGTTGGGAGTTTGAGATCAGCCTGACCAATATGGAGAAACCCCATCTCTACTAAAAATACAAAAAATTAGCCAGGCATGATGGCACATGCCTGTAATCCCAGCTACTCGGGAGGCTGAGACAGGAAAATCGCTTGAACCCAGGAGGCGGAGGTTGTGGTGAGCCGAGATCGTTCCATTGCACTCCAGCCTGGGCAACAAGAGGGAAACTCCTTCTCAAAAAAAAAAAAAAAAAAAAGAAAGAAAGAAAGAAAGAAATGCCACCAAGATACAATATATAAATAAATAGGCCCATTGAGGTTAAGAGGCAACATACTTGAGCAGAAAGGTGCCTATTTAATTTTTTAAACCTTGAAACATTCTCAGATACACAAAGTCATATTGTATAAAAATCAAACTGGATTTTAAAAAATAAACACATGCTTTTTAGAACTTGAGAGTTAATTAGAGTTAATTGCTTTATGGTACCTAAGTTTACCTATAATTCTGATGTGAAAAATTTGATGGGTCTGTTGAGATTAACTTTTGAATTGATTTTTGACAATGGGGCTACCTCTCTACCTCTGCCCATCCCAGCTTTTTTCTCTTGCCCATTTCTATTTTGTCATCAGAGGTACTCACATTCATCTAGCTCATTTTAATCAATTAAAATGTGTGTCTCTGACTAAAATGAAAACAAACAAGAAAATACTATTTTGATGGGCTTTTTCACACCTTACTCTTTCTGAAACTAAATAACTTTTAAAATTAACTTATTAATATAACATTTTATTTTCTCTTTTGTCTTCTCTTCTTAG
Seq C2 exon
GGCCCTCCTGGTCCACCAGGACTTCCAGGACCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188153:ENST00000361603:10
Average complexity
IR
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=FE(32.8=100),PF0139113=Collagen=PU(18.6=52.4)
A:
NA
C2:
PF0139113=Collagen=FE(18.0=100),PF0139113=Collagen=FE(18.6=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
- Autistic and control brains
- Pre-implantation embryo development