HsaINT0038982 @ hg38
Intron Retention
Gene
ENSG00000134871 | COL4A2
Description
collagen type IV alpha 2 chain [Source:HGNC Symbol;Acc:HGNC:2203]
Coordinates
chr13:110462278-110465606:+
Coord C1 exon
chr13:110462278-110462384
Coord A exon
chr13:110462385-110465404
Coord C2 exon
chr13:110465405-110465606
Length
3020 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
TAAACTGAATTTTCACACAGGGT
3' ss Score
5.49
Exon sequences
Seq C1 exon
GTGAGCGGGGACAGCCCGGCGTCCCAGGTGTGCCCGGGATGAAAGGTGACGATGGCAGCCCAGGCCGCGATGGGCTCGATGGATTCCCCGGCCTCCCAGGCCCTCCC
Seq A exon
GTGAGTAGCCACAAACTGCGGCAGCTCCGTCCTCTCTTCTTCATCCTTCAGGTTCTCCAAACACCCCAGAAGCAAACAGTATTGACATGAGCACTAAACCAACCTGTGCATAGGACAGGCTGCTCATTCTGCTCATTCTATTTCTAATGAGCAGAAATCAGACTTTTTAGGAAACGGTGAATTAAGTTAGAAGCCAAGCTCCAAATGAACATTTAAAAGTCAACAATCAAAGAAATATTCCTCCTGGTGTAACAGACTAAGAACCCTCCCCCGCCAAAAAAAGTAGACTATTCTAAAATGGGTGGTGGAACCCTATTTTTCCAAGGTAAATCATGAAATATACAATTTCATTTTTGCAACAAACACACACTGGTGTTGAAGGAGGGGCTACCTAGTAGCCTGCAGAGACCCCAGCATCATTTCCTCAGGGGAGGCTGGGGTCAGAGGCGCGGGAGGCAGCCATGGAGGGAGACAAGACCCCTTCCTGTGCACCCTCCAGCCTCTGAGCCTCTCCTGCCACCACGCCTTTCCCACTGCCAGCTCTGGAGCATTCTCTTCTCAGAAGGACCTTGCAACCTTATTTCTCACGTCTTTTTTTCTAGATTCCATTTTCCTCCCTCTAGTCACCAAGCCTGTACCTCCTTAAGCTCTTTGTACTGGTTTCCTGGGGCTGAGGTCACAAACTGCCACAGACTGGGCAGCTTAGACATCAGAAATGTATGGTCTCACAGCTCTGGAGGCTGAAAGCCGACATCAAGGTGTCTGCAGGGCTGGTTCCTTCTGAGACAGTGCGGGAGGATCTGTCCCTGCCTCTCTCCCAGGTTCCCGGAGCTCTGGCATTCCTTGGCTTATAGACGGCTGTCTTCTCTCTGTCTTCTCATCATCTGTCCTCTCTGTGTGTCTGTCTCTGGGCCCAAATTTCCCCTTTTTATAGGGAGAGCGGTCATATTGGAATGGGCCCATCCTAAAGACCTCATCTGACCTTGAGCACCCTCAAAGACCTTATTTCCAAATAAGGTCACATGTCTAGGTCCTGGGGGTTAAGACTTCAGCATCATTGGAGGACGATTGAAGTCATAATCCTCTTTCTCCTCCTCAGAGCCTCACGCCTGAATTCTATTCGCAGCTTATTTGCCTCATTCCATAACCCATGTCTTCTCTAGTTTTAACGTGGGTCATGTCTGTAATAACACTCTTGAGTGCAGTGGTACAATCAAAGCTCACTGCAGCCTCGAACTTCTGGACTCAAGCCATCCTCCTGCCTCAACCTCCCGAGTACCTGGGACCACAGGTGCACACCAGCACACCCACCTAATATTTTTAAAATTTTCTGTAGAGATGAGATCTCTCTATGTTGCCCATGCTGGTCTCAAACTCCTGGGCTCAAGTGATTCTCCTGCCTTGGCTTCCCAAAGCACTGGTTTTATAGACATCAGCCACCACACCCGGCCCACATTTTTACAATTTAAGTGCAGTTTTTTGGGGCCAGAGAACACAGATAATTCTATGATTGGGTATCTTAAAAATCTCATCTGGGAGGCAACAGGGTTAAATAAGAGGCAAAGTCATAATTGGTCACTTTAGCCAGAAGAGGAGGATGAGTGATGATTCCTGTGGTTGGAACAGTCTTTGGCCTGTTCAGTGTCATGTGGGGTGGGGGTGGTGAGTGTATGTGTGGTGTGTGGTGTGCTCATGTGTGTATGTGTGTGGTCCGTTTGAGTCTGGATTTGTTACGGTAGTGGTGGCCTTCCCTGGAGTTGGTGCCTTGTGAAGTTGGTGACCAGGAGGTGCACCTGTCCAGCCATGGGGTTCACCCACCCCTGCGGCTCCCAAGCCTGGCTGCCAGTCCCAGCCCAGCTGGGGGCAGGTGGTCGGAGCAGGGTTAGGGGTAGGGGTGAGGGTTAGGGTCAGGGAGAACCTTGCAGCCTCAGCTTCCCATTCTCGGGGTGTAGGGACTTTCCCAGTGCTTGTGTGCCTTCCTTGTTTGGTGGCATCTCTAAACCAAGAATGTCAACTTCTGCCTTTAGAAAACTCGTGATCCTGCCTGTGCCACCTTCCAGTGGCATCATCCCCACTGCTGTCCACTAAGTTTGGGGCATCTGCCCTGTGATCTCTGCAACAGCCTTGTGTCCCCCTCCCCTGTGAAAAAAAGCTAAAACACAGGGGTACACCACTTAATCAAGGTCTCATAAATAGAGCTGGACCGGTGTCCCTGCCCCGCTCCGTCATGCCTTTGACAAGGAAGGGGCTGTGGTGTCAGTGGAGAGCAGGGTTTGATTTCTTATAAGCAGCTGCCTCATTGTCATGAGAACACCCAGCCTCGTCCCGTGGCTCAGCAGATGAGCGGGAGCTTATGCGCATGGCTGTTCCACCAGCACGTGGGGACAGCACCGAGCCGTGCCGTGGTGTGTGCGCAGATCACACCAGCATCACTGCTGCCAGCCTCCCCACCCCATCCCTGCACCTCCCACCAGCTCCCCCCCGCACCCTGCAGCTGGTGCTTTCATCCACAGGGCAGCCCCTCTCCATTCCCAATCCTGTAATCTCTCCTGACTTCTGAGGCGCACACGGCTCTTTCCTTGTCCAAATTAGCTTCCTTTCCTTTAACAACGTAGCATCTCTTAAAATAACAGCCATTTTACCGATGCTAAATTATAACAACAAAATCATGTGTTTCTTTCTCCACCCACAGTAGAACACAAAAGCCTGTGCCTTCGCTGTTCTGGAGATGAAGGCCCAGGCTGATGCAGGGGAGCTGGCGGGTGGGAAGAGAGAAATGCTCAAGCATGTACATGTGCCTTCCAGAACCGGCTTCCGTGGCATTGCTTAGACTGCTACACAGTCTGTCACTGGCTCCTGTGACCTGGCTGACCATGGCACTAGGTTCCTGTTCATCTCTGTTGTCTTTCTGTTCTGGATCCATAGCTCAGAATTCCGGGAAATGGGAAAGGAAACAGGGAAGTCGAGGCGATCTTTAACATTAGTATATATTTTAAGAAATAAACTGAATTTTCACACAG
Seq C2 exon
GGTGATGGCATCAAGGGCCCTCCAGGGGACCCAGGCTATCCAGGAATACCTGGAACGAAGGGTACTCCAGGAGAAATGGGCCCCCCAGGACTGGGCCTTCCCGGCCTCAAAGGCCAACGTGGTTTCCCTGGAGACGCCGGCTTACCTGGACCACCAGGCTTCCTGGGCCCTCCTGGCCCCGCAGGGACCCCAGGACAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134871:ENST00000360467:24
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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