DreINT0051765 @ danRer10
Intron Retention
Gene
ENSDARG00000100506 | crb1
Description
crumbs family member 1, photoreceptor morphogenesis associated [Source:ZFIN;Acc:ZDB-GENE-050208-382]
Coordinates
chr22:23488816-23492090:-
Coord C1 exon
chr22:23491161-23492090
Coord A exon
chr22:23489370-23491160
Coord C2 exon
chr22:23488816-23489369
Length
1791 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GTCTTTTCTTTTTTACACAGAGT
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTGCCTTGTGCGAGCAAAACACAACTGCCTGTACCACCAGCCCATGTCATAATGGAGCCACATGTGAAGACTTCCTAGGCAGCTACAAGTGCATCTGCCCTTCTGAAAGCCAAGATGGAGTCCTCTACGGTGGTCGAAACTGTAGCGAGCCTCTTACAGGTTGCGAAGGTCACGAGTGCCAGAACGGAGCGTCCTGCATCCCATTCCTCAGCGAAGGTGTACATGGATACAGTTGCATCTGTCAGCCTGGCTACACCGGCTCTTACTGCCAAACGCTCACTGTGTTCTCCTTTGAGACAAGCAGAGCATTCTTGCACCTGCAGACCCCGCTGCTGGGTGCAGAAACATATTTCAATATCACGCTAAGCTTTCGTACAGTCCTGGAGAACACAGTGCTCTTCCAAAGGGGCAGCGGAGGGGTCACACTCAGCCTGGAGATACAGGAGACACACCTGATTCTTGATCTTAAGACTGACCCTCAGCCAAACGCAACCAGCTGGACTCTGATGTTGCCTCAGGTTGTATCTGATGGTGAATGGCACACAGTAGAAGCCGTACTTGGAGAGGGTACCCTGCTGCTGCAGCTGCTGGAGCCATGCCAGGGTGGACAAAACTGTGGTACAACAGCCCAAGTAAAGATCGGCGCCCTTGAGCTGGAGTCAGCCCTACTAAGCACCTTTGTTGGAGGATTGGATGAGGGAGGGAGCTCCAGATCATTCATCGGCTGCATGAGGGACTTGCTCGTGGACTCGCAGCTGATGATACCGGAGGACTGGTTGAGCAGCTCAGCTGTAAATGTTGTGCAGGGCTGTAGCCATCATGACCGATGCCTTTCTGGTCCATGCGAGAACCATGGAGAATGTGTTAACCTTTGGCAAGGTTACCAGTGCAAATGTCTGCGCCCATATGTGGGTCAAAACTGTGATGAGG
Seq A exon
GTAAGGACACCAAGAATTGACCTTCCATTAACTAAGTCTACACTAGAAGCATTTAAAGTGTTGCAATTTTTTTTAAAGAGCCCCTATAATGCATTATAAAGGGTCATATTTTGGTTTTGGGGGTCTCCAACAACAGGCTAATTTGCATGCAAGGTCAAAAAGCACTTTCATTGTCGTATAATATGCATTTATTTTCACCTAATTATCCCAGCGACTCTCATATGATTCGTACAGCAATTCATTTGTCCCCAAACCCCTCCTTAGCGCAATGCTAATTTGCACTGATTGGTCCAATGACCCAGTCTGTTGCGATTGGGCGACTGCATTTAGCGCGAAACAGAGAGAAATGCCCACCATAGCATATCGATTTTTGAAGTAGTCGGAGAGCTGAGTATATGTGTGAGCCCAATGCAGGAGTGTATTAAAGCAATGCAATTAAACACCAGCATATTGCTACATTCTTAATAGGTTAACCAATAACAGTACAAGCAGAGTGGAGCGATCCAATGTAACAAAACACAATTTAATTCATGTTTTGCCATATAGAGAAAACAAGGAGGCAACAATTTTAATCACACTTTAATTTGTGAAATGGACGAGGAAACTGATCCATGAACCGTGCACTGTAAAGTTCCTGTCAAGCTTTGACAAAGTCCAATACATCAATAAAGACTATGGATTGATTATGATCCTTTCTTTAACAAATGTCCAACAAATCCCCCATTGCAGGTTAAATTATTGTATTAATCACCAGAACGTTCCCTCATTGATGTTCACTCATCTTAAGACATAATCAGTCCCACACACAACCACACTGTTAGCGTTGTGTGGGAAAAGCGTGTTCACGTTTTAGCTGATCTGTCACAGAACATATTTGGTATTGTTTCGTGTCGACATCGTTACGAACATGCAAAAGATCCAGACGAACTAATCATTTAAACAACTCTAAGTTGAAACTTTTATTAAAAAATCTATATTTTTAAACTAGGTGCACTTTCAGATTTACACCTCAGCTGGATGTTTTCATCCACTTAGGGCTGCACACTGTATGGAAGGTCATTTTCAACAACTCATAATAGGGGCTCTTTAAGAAAACAACAGAACTATGCCTTGATCGCTACTGGTGTAAATAAAATAGCTACATTTTTATCCAAACATGTACATTAAACTTGTGTCTGTCTTGGCTGAGGGATGGCCAAATGGCAAAATGAATGCCCAAAACAACATTTCAGATGTTTTACAATGTGGTCGATCTGCTGTTTTTTCTACTAATACTTTTTGTTGTAACATGATCTGTTAGAACACAGGTGTCAAACTCCTGGCCGCAGCTCTGCACAGTTTAGTTCCAACCCTAATTAAACACACCTGATCAAACTAATTAAGTCCTTCAGGCTTGTTTGAAACCTACAGGTAAGTGTGTTGGAGCAGGGTTGGAACTAAACTGTGCAGGGCTTCGGCCCTCCAGGAATTGAGTTTGACACCCCTGTGTTAGAGGGTTAGGTTAGGGTAAGGGTTAGTACAGTTAGTAGGGTTAGTCAGTAAATGAGTTTCCATCATAGTTTATGAACATTTCTTCCTATCCTTAAGTTTATCTTACTCAGTTGTGCACATATGTTTTTTTTTTATTTTGTATCCGCATTCTAAAAATGTATGCAGATCTTTTTATTAAGCATTTCTTATGCAATATTCCAAAAGGGAGCATAGCTAGTGATAGTCTTCAAATAAATGTAGAAGAATTATATGATCTATTCCTTCAAGATGTATGATGTATGTCTTTTCTTTTTTACACAG
Seq C2 exon
AGTATATTACCGCCAGATTTGCCCAGCAAGACTCGACAAGCTATGCTGTCTTCACCATCAATGACGAACCTGACTCGGAAACACTTCATCTGTCCATGTTCTTGCGTACTCGAAAAGACTCTGGTCTTTTGGTGCTGCTGGCCAACAGCACCTCTGACTACTTGCAGATGTGGCTGGAAAAGGGAAAACTGACAGTTCAAGTCAACAACTTGAAGACTGTGACTGGTGAAAGGGTGCTTAATGATGGTGAGAGACATTTTGTCAGTGTCACCATCGAGGATGGCATGATGACTCTGCAGGACTCGGATCATGAATTCGAAGCAACATATGTTCAACCTGTTTCCATTCAGTTTGGGGATACGATCAATGTCGGTGGCCTGTTTGATGTACAAGCCTTAACTGCGTTTGGTGGACATTTTAAAGGTTGTCTACAAGACTTGCAGCTTAATGAGAAGAAGCTTGAGTTTTTCCCAATTGATACTTCTGCGATGTCGTACAAACCCGATCGCGTTGTGAAAGTTACTGCAGGCTGCACCAGTGATGACACTTGCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100506:ENSDART00000166915:6
Average complexity
IR
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(3.9=0.6),PF0000822=EGF=WD(100=14.1),PF0000822=EGF=WD(100=13.5),PF0221019=Laminin_G_2=WD(100=41.5),PF0000822=EGF=WD(100=10.0)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=63.8),PF0000822=EGF=PU(3.2=0.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAATGTCTGCGCCCATAT
R:
GTCCTGCAGAGTCATCATGCC
Band lengths:
345-2136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]