DreINT0051772 @ danRer10
Intron Retention
Gene
ENSDARG00000060106 | crb2a
Description
crumbs family member 2a [Source:ZFIN;Acc:ZDB-GENE-060612-1]
Coordinates
chr21:8386235-8387230:-
Coord C1 exon
chr21:8387104-8387230
Coord A exon
chr21:8387030-8387103
Coord C2 exon
chr21:8386235-8387029
Length
74 bp
Sequences
Splice sites
5' ss Seq
AATGTAGGT
5' ss Score
5.12
3' ss Seq
ATTTGATCCTCTCTCTACAGAAA
3' ss Score
9.62
Exon sequences
Seq C1 exon
ATGTGAGAGAGAAATCGATGAGTGTGCTTCTAGCCCTTGTCTAAATGGTGGATCGTGTCTGGATCGCCTCAACCGCTTTCAGTGTTTGTGTCCCGCAGGATTCAGTGGCCAGTTCTGTGAAACAAAT
Seq A exon
GTAGGTACAAATAAGAAGCACGCCAGTTTAGAAGTGTTGAGAGTTACTTTAACAATTTGATCCTCTCTCTACAG
Seq C2 exon
AAACAAGCACAGCAAGATCATATACCATGGCTGGCGATAGCGGTTCCATTGGCTTGTGGCTGTATCCTCTTAGTGGCCATTGGTCTCATTTTCATGTTAATGACTGCACGAAAGAAGCGGCAGTCGGAAGGAACTTATTCCCCAAGTCATCAGGAAGTTGCTGGTGCACGTCTGGAGATGGACAGCATGCTGAAAGTACCACCAGAAGAACGGTTAATATGAGATAAAATGCAGAGGCTTTAATATTATTGACTTTTCCAAGACGATGTGGCATTATGGAGCCACAACGAGAACATCAAACAAGCAACCTGAAAGTGCACTGCGAGAGGAAACTTGAAATTGGAAAATGGGAATGAATTTAATATGAATTAACTGTCATTATATGACTGTGGATGTTAACCAGAAACTCTTCCAGATGACATTGGACTTGGTGATGATTTACCTCATGGCATTATATGCCTTAACAGCTCTGACAAAGTGTCATACTGTAAAGAGGTGGAAAAAAATTTGTTTACTTTCTCCCAGCAACAAAACCCTCTCAAAAACGAGCAACTGAAAATAGTGTTATTGAACAATATTTGAATGTACAAGCTATAATACCCATAGCAAGACTGTTGTGCTAACTAGCTACTGTTCCTGCTGTAGGCTACACTGGATATGATAATCAAAACAGACGAATGTGGCTTATGGGAAAAATTAGCCATTAACTTTTGCAGAGGAGGGGTACAACTGAAGTTAGTAACTTCAATAGTAATAATGTGCTTTCTTTAAAAGAAATATGGGCATTGCTGTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060106:ENSDART00000084378:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(0.1=0.0),PF0000822=EGF=WD(100=72.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATGAGTGTGCTTCTAGCCC
R:
AAGCCAATGGAACCGCTATCG
Band lengths:
167-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]