HsaINT0041226 @ hg19
Intron Retention
Gene
ENSG00000134376 | CRB1
Description
crumbs homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:2343]
Coordinates
chr1:197396584-197398744:+
Coord C1 exon
chr1:197396584-197397131
Coord A exon
chr1:197397132-197398578
Coord C2 exon
chr1:197398579-197398744
Length
1447 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TTGATTTCTTTTCTGCTCAGTCC
3' ss Score
7.07
Exon sequences
Seq C1 exon
AGTATGTGGCAGGCAGATTTGGCCAGGATGACTCCACTGGTTATGTCATCTTTACTCTTGATGAGAGCTATGGAGACACCATCAGCCTCTCCATGTTTGTCCGAACGCTTCAACCATCAGGCTTACTTCTAGCTTTGGAAAACAGCACTTATCAATATATCCGTGTCTGGCTAGAGCGCGGCAGACTAGCAATGCTGACTCCAAACTCTCCCAAATTAGTAGTAAAATTTGTTCTTAATGATGGAAATGTCCACTTGATATCTTTGAAAATCAAGCCATATAAAATTGAACTGTATCAGTCTTCACAAAACCTAGGATTTATTTCTGCTTCTACGTGGAAAATCGAAAAGGGAGATGTCATCTACATTGGTGGCCTACCTGACAAGCAAGAGACTGAACTTAATGGTGGATTCTTCAAAGGCTGTATCCAAGATGTAAGACTAAACAACCAAAATCTGGAATTCTTTCCAAATCCAACAAACAATGCATCTCTCAATCCAGTTCTTGTCAATGTAACCCAAGGCTGTGCTGGAGACAACAGCTGCAAG
Seq A exon
GTAATGATTACTCATACAAACTAGGTATATACTGTATGCTAAACTTTTACTTTATTAAAAAGATAACTTATTAAAACCATTCTTTGTATATAAAGATGATGTTACTGACCCACCAGTATAGAATAATATTTCATCTATATTGTTCCAACAAGACTGTGAAATTTACATTGAGCCATAGAAATGAGGCCTTGATCTTACTGGTATCAGGATCTATTTAACTAACCAAAGTAACTTCGGCTATAGGCTTCTCTCACCCTCACAGCAATCAAATTACTTAGGTATAATAATATTTCAATTCCTAAACTCCTAATGGCACACCAGAGGTTTAACTGAATTAACTCTTTTTGGATGATATTGTTAACTTTATTTTAAATGCCCAACTACTATTGTTTTGAACTTTTATTAAGTCAGAAACAACAAGAGAAATCTGAGAGGTAATTTCCTTCTGGTAGTTGAAATCTTCCGAAATATAATTTCTCAAAGCCCAAGCTTTACTTTAAATATTCTATGTGCTCTTCTAAGAGCTGCTTAAATACAAGAACTTGTCAGCTCTGCATGACCTTTCAAAGGAAAAAAAGGAAACGCATTTCTGTGTGTTGAGCGTTTGTTGAGCTCCAACTATGGCCCTACACTAAGCTTGGTTCTAAATATACACAAATGAATTATTGTAACATAGTTATGGAACATTTTCAATGTACTAGGCACTATTTTACATGGATTAATCCACTTAGTTCTATTGAAGGACTACTGTGGAAAGCAAGCATTATTGTTGTCCCAATTTACATTATTTACAGATGAAGTAACTGAAGTTTAGAAAGGTTATGTAACTAGCCTAAATCATATGTTAATAGTAGACCCAGGACAAACACAGTTCATGCTCTAATAAATTTCTTTTTAAATACTTTCATTTTGAATACTTTTTGTGAGCAACCTTGTGAGAACTCAAATAATAATACTATGTCTCTGATTCAGAGGCAGACCAATGTGGGAAGGGCACTCACTGAGTTGGGATCCAGAGGACCTAAGTACCAAGTTTCACTGTTTCGCTTCTGTGTAGGATCTTGGGCAACTGGAAACACCTTCTTTTTATCATCTATAAAACCAGGAGTAAGAATCCCTTCCTCAAATGATAATTAGTGCATGTGAAAAAGTGCCTGGTAATTTGTAAATTACAGAGGACACTGCTATACTTGAAAAACCCTCCTTGTGCTATGGATCAATTTTATATCTTTTCTCTCTCTCTGCCACCACTCTGCCCTTTTAGAAAGGAGTTGGTAATGGCAGTAGTCATTTTTATTCTATTTAGTTAACAATGGATCTTAAAAGTTTAAAATGTAAAGATGCAGGGAAATTAGCATTTTAAAAAAACAGATATGTGGTTTCACCGTCAACATTTTTCTATTTAGTTGCCAGTGCTTTTTATACCTTTGATTTCTTTTCTGCTCAG
Seq C2 exon
TCCAACCCCTGTCACAATGGAGGTGTTTGCCATTCCCGGTGGGATGACTTCTCCTGTTCCTGTCCTGCCCTCACAAGTGGGAAAGCCTGTGAGGAGGTTCAGTGGTGTGGATTCAGCCCGTGTCCTCACGGAGCCCAGTGCCAGCCGGTGCTTCAAGGATTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134376-CRB1:NM_001193640:5
Average complexity
IR-S
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:
PF0221019=Laminin_G_2=WD(100=64.5),PF0000822=EGF=PU(3.3=0.5)
A:
NA
C2:
PF0000822=EGF=PD(90.0=48.2)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCCTACCTGACAAGCAAG
R:
TCAAATCCTTGAAGCACCGGC
Band lengths:
343-1790
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)