DreINT0136759 @ danRer10
Intron Retention
Gene
ENSDARG00000078451 | si:ch211-165b19.4
Description
si:ch211-165b19.4 [Source:ZFIN;Acc:ZDB-GENE-070912-132]
Coordinates
chr9:32843808-32844880:-
Coord C1 exon
chr9:32844620-32844880
Coord A exon
chr9:32843955-32844619
Coord C2 exon
chr9:32843808-32843954
Length
665 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATG
5' ss Score
5.98
3' ss Seq
TTTTGTCCATCTTTTTTTAGGGC
3' ss Score
12.42
Exon sequences
Seq C1 exon
TTGAAGAACAAAGCTAAGATCAACAAATTTGTTAAAGTTTTGTCTCTTCCTAAAAAAAATGAGAAACTTCCAGAAAATGTCAAATGCTCAATAGCTGGCTGGGGGACGAAAGAATCAAATGGAAATAAGCCATCAGATGTACTGGAGGAAGTCACTGTCAAACTGCAGAACAACCATGAATGTGAAAGAAAATGGCAGCAACATTTTAACCCTGAAAGAATGTTCTGTAGTGTCTCAGATGGGAAACATGCTTTTTGCAGG
Seq A exon
GTAATGCTTATAATGTATGGGTAATATATATACAGTTTAAGTCACAGTTTATTATTAGCCCCCCTGAATTATTATCACCCCTGTTTATTTTTTCCCCCAAATTCTGTTTAATGGAGGGAAGATTGTTTTAACACATTTCTAAGCATAATAGTTTTAAAAACCTATTTCTAATAACTGATTTATTTTATCTTTGCCATGATAACAGTAAATAATATTTTACTTGATATTTTTCAAGACACTTCTCTACAGCTTAAAGTGACATTTAAAGGCTAGGTTAATAAGGTGAATCCGACTGGTTAGGGTTATTAGGCAAGTTATTCTATAACGATGGTTTGTTCTGTACACTATCGAAAAAAAAATTAGCTTAAAGGGGTTAATAATTTTATCCCAAAAATAGTTTTTAAAAAATTCAAAACTGCTTTTATTCTAGTCGAAATAAAACAAAGAAGAAAACATATTATCAGACATACTGTGAAAATTTCCGTGCTCTTTTTAATACCATTGGGGAAATATTTTAAAAAGAATTAAAAAATCAAAAGGGGGCTAATAATTCTGACTTCAACTTTATACAAAAACATCAGATATTATATTATTATTTATTATTAATAATATAATATTTTATTTTATTATATTATATTAATGTTGTTTTGTCCATCTTTTTTTAG
Seq C2 exon
GGCGATTCAGGAAGTCCTCTTATCTGCAATACTAAACCACAAGCAATTGCTTCATATACTGTGAAAAAAGACTGTTTACATACACATCCTCAGGTTTTCGTAAAAATCTCCTGCTTCCTTCCTTGGATTAAAAAGAATATGGTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078451:ENSDART00000078399:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(37.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.5=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAAAGCTAAGATCAACAAATTTGT
R:
ACGAAAACCTGAGGATGTGTATGT
Band lengths:
356-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]