DreINT0153693 @ danRer10
Intron Retention
Gene
ENSDARG00000067673 | snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5794]
Coordinates
chr5:50535420-50536258:-
Coord C1 exon
chr5:50536152-50536258
Coord A exon
chr5:50535515-50536151
Coord C2 exon
chr5:50535420-50535514
Length
637 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACTGTTGGCTCTAATTTCAGTTG
3' ss Score
6.95
Exon sequences
Seq C1 exon
TGTCACATTTTATGGTGGGTCGTGATGGATCTCAGTTGGCATATCGCTGGACATCTGTCCTGGATCCCTCATTAAAGAAAGGCCCTTGGTCCAAAGAGGAGGACCAG
Seq A exon
GTATGGAGCAGAATTAATTTTGGATATTATATTAATTTTGGTTTCTATATTATAATAAATAAGAAACTCATTATGAATAAATTGCTTTTGCATTATATTTTCAGTGACCACTAGGGCCAGACAGAATATGTGGACATGTTTGCAGATAATTTTGTAAAAAAAAAAAACAAATCTGTGGATTTTTGCTGTAACTATTTTAGGAGTATCATAACTAAAAACTTAATATATGAAATTAAAAAGAATTGCTTTTTTTAACTTTTATTTAATGTTTACAAGGCAAATCCATCTAGGTCCATTTATTTGGTAAACAAAGCAAGTCTGTCATATAATATAACTACTAAAAGACAAAAATATAACTTTACAAACTTTATTGTAAATAAATCAAATGAACTCTTTTATATTAGTCAATATTATTTACGAAATTAATAAAAAATGAATAAATATCAATTTACGCACATTTACACAAGTAAATAAATAGACTCAATGATGGGCTGAAAATCTGCGGAAATTTGCAGATTCTGTGTGGACCTAGTGATGACCCAACGTTTCAGTTTTGATATCTGCTGCAGTTACAGAAAAAACGTCTGGAATCACACATCCACATATTTACTAATTTGACTGTTGGCTCTAATTTCAG
Seq C2 exon
TTGTTGCGGAACGCTGTGGCAAAGTATGGGACCAGAGAATGGGGGAGGATTAGAACGGAAGTGCCAGGCAGGACCGACAGTGCTTGTCGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067673:ENSDART00000141424:10
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:
PF0024926=Myb_DNA-binding=PU(19.1=25.0)
A:
NA
C2:
PF0024926=Myb_DNA-binding=FE(66.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCACATTTTATGGTGGGTCGT
R:
CTGTCTCGACAAGCACTGT
Band lengths:
202-839
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]