HsaINT0041232 @ hg19
Intron Retention
Gene
ENSG00000134376 | CRB1
Description
crumbs homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:2343]
Coordinates
chr1:197313411-197316609:+
Coord C1 exon
chr1:197313411-197313606
Coord A exon
chr1:197313607-197316469
Coord C2 exon
chr1:197316470-197316609
Length
2863 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
AAATTTCATTTACTTTCCAGATA
3' ss Score
7.1
Exon sequences
Seq C1 exon
GTGTAAACTGTGAATTGGAAATTGACGAATGTTGGTCCCAGCCTTGTTTAAATGGTGCAACTTGTCAGGATGCTCTGGGGGCCTATTTCTGCGACTGTGCCCCTGGATTCCTGGGGGATCACTGTGAACTCAACACTGATGAGTGTGCCAGTCAACCTTGTCTCCATGGAGGGCTGTGTGTGGATGGAGAAAACAG
Seq A exon
GTACATTTTCTCTGGCGTTGGGTGATTGGCTTAGAACTCCCTGACCATGAACTATTTTACCACTCTGTTGAATTTAGAGCTCTCACGTTCTCGGCTTAAAATTTGGGGTGTAACTTTATACTTTAACTGATGAAAACATTCAGATTTCACTAAAAAGGGTATTCTTGGAGACCATCTGTCTCAAGAGGGAAGATTTTACAAGTCATTCTTGTAATAGTTTAGAACTGCTTATCCTATGGAAAATGGCCAATTTTTCAATTCCATGAAATAAAGCTGTTGTAGATAGGAAAGGTGCAAAAACAGAGCTAGAGATTATTATATATGTGTACATAAGTTTGTATCTATATGTCAAGGATATAAATCAGATGACAGCAATAAATCCTTTTAAAGTGTTATATAAACCATGTTGGAAAAGGCAGTGATATTTAATTACTTATATCTTGAATTAATTTCCATGTGTTCAGGGAATTGGGTGAATATTTTTGAGAAAGCATAATGGCGAGAAATAGCCATGTGATTCTGCTTCAAATTGAAGTCTATCATTGGCTTTCAGGCAAAATAGAACAGCAATAAATTACATCTCAATATGATGAATATAATAAATGTGTGTAACAGTAATTGAGCTCATATAAAACATTTTTAAAAGAACTTTCTAATACTTATTTAAGCCACGACACTGAAGAACTTTCTAATCTTTATTTAAGCCACGATGCTGAGTTACCAAATACATAACAATTTTTAACAAGATTAGCACTTAAAATTATCGTTTGATTCTTCGACAGCTCAGTGGAAGGCAAGATAAGTATTTATGTTTCCATATTACAATAAGGAGTCTAAAGTTTAGGGAAATGAGAAGACGCCCGCAAGTTCACACAATTAATTCTTTGCAAAAGGAAGACCAGAATGGTTTTCCTTTATTTAGTAAATAAGACATAATTTATGCCAAATCTAATTTCAAAGTGAATCAGAGTCAAAAGGAGAGCAATAAAAGGCACATATGCTTCAAAAATTTGCAAAAATAATGACTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTTGCTGTGTCACCCAGGCTGGAGTGCAGTGGTGTGATCTTGGTTCACCGCAACCTCCGCCTTCCGGTTCAAGCAATTCTCCTGCCTCAGTCTCCTGAGTAGCTGGTATTACATATGCCCACCACCATGCCTGGCTAATTTTGCTATTTTTAGTAGAGATAGGGTTTCACCATGTTGGCGAGGCTGGTCTCGAACTCCTGACCGCAGGTGATCTACCTGCCTCTGCCTCCTGAAGTGTTGCGATTACAGGTGTGAGCCACTGCACCTGGCTCTCAAATTTTAATAGAACAATGTGGTTGTACATTCTTTTTAAAATATAACTTTTAATTACATTCCATGTCTTGCCTTTGACTTTTAGTTGTACCCCAATAATGCTCTAGGGGCATAAATCTACATTCCTGGAGACAGGTAACTGGCCAACACAGAGACAGACAGGTCACAATGGAAGTTTCCACACAAGGCCTCCTAGAGGAAAAGGAGGCTTACCCTTCCATACTTCACTGTTTCCAGAAAGCATCAGGACAGAAACGACACAACTTTTTGATTCCAATGGAAATGTAAACAAGGCTGAAACTTTGCTATCTTTTATTCTCCTCACTTGAATATGCCATGAATAATTTCCCTATTGTACCATTATCTCTTATTGCCTAAATGTTGAGATGATAGTCATAAGATCAATCCAATATAACCTGACTTTATGTTCCCACAAAAATTTAAAATGTTTGCTATGAGATACATTGGAAAATCAGAACTGAAAAAAAAAAAAAGAACTTCTTGCATACCAAAGGAATTATGCAAATGGAGCTTCTAATTCCGTGAGGTCCACTAGTCAGCCAGCCAAGCCCTTTGGCAACAGGGTTTTTGTCGCTAATGTTTTACCTATACTAGATTTTTAGTAGGTATTTTTTAATTGAACAAATGGAATACTGAATAGATTTCTAACAACACATATGAAGATTACAGTCACTTACAATATTTGGTTTGGTGATAAAAACACACACAGCCATAGCGAAGAGGACTCTACCTGCCTTATAAATTCATAGATATTCTTTTCCCAAGACCCTCATTTTGCCTAAGCTGAGTGTGCAGGTACATTTTTTACAATACTAAATCCTTGAGGAGACCCCGACCTAAATTAAAAGTCTCCTCTTAATAAAATCAACAACTTTCTTCATTAGATTTGTATTTTGGGGCTATTTGATAATTCCAGTCATTCCGTTAATAATTAGAAATAGTAAGGCCTAAATATTCTTGCAATCTAAAAATAAGAGAACATCGTAAGTCACAATTCATTTAATAAAGGCTTTTCCTGAGTTTTTCATAATTTATGGTTTCACTTTTCATATGGAACCTTATTAATGGGCTCTCTGTATAACAGAGTGCCATGATGGTATAAATCATTCTCTACCACCTTAAAAAATATTAACAATTTTATTAAGTGCTATTTAGTAGCAACATATTTAGTACTTCAGATATGTGGAATACTGTGTCTATTCTTTATATGCATACTTAATTGTCACAATAACCTTGTAATATAGGTACTATATTCAATTTATGAATGAAGAAACTGAACTAAATAGTCATGGTTTGCATGACCCTGTACTTTAAATTTTTTAAAGTTAATAAGACATTAATATGGAAATAAATCATGCATTCAGTCCTGTATAGATAATTCCCCAGAGTTTTTGAGGTAGTAAGATGATGCCATGGGTCTTGGGTTGATAGACAGTTGAAGAAACAGTATAAAGATATCTGATCTCAATATGACTAAGAGTTGACATGAAAATTTCATTTACTTTCCAG
Seq C2 exon
ATATAGCTGTAACTGCACGGGTAGTGGATTCACAGGGACACACTGTGAGACCTTGATGCCTCTTTGTTGGTCAAAACCTTGTCACAATAATGCTACATGTGAGGACAGTGTTGACAATTACACTTGTCACTGCTGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134376-CRB1:NM_201253:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=3.0),PF0000822=EGF=WD(100=47.0),PF0000822=EGF=PU(53.1=25.8)
A:
NA
C2:
PF0000822=EGF=PD(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
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]
SPECIAL DATASETS
- 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)