DreINT0179695 @ danRer10
Intron Retention
Gene
ENSDARG00000052905 | zgc:165423
Description
zgc:165423 [Source:ZFIN;Acc:ZDB-GENE-070720-11]
Coordinates
chr3:39402080-39403589:+
Coord C1 exon
chr3:39402080-39402348
Coord A exon
chr3:39402349-39403440
Coord C2 exon
chr3:39403441-39403589
Length
1092 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
TCTCATTATCTGTTTCGCAGTAT
3' ss Score
7.33
Exon sequences
Seq C1 exon
CAATCCTAATCCTTCAGACTACACTGTGTATCTTGGTCGGCAAAGTCAAGATCTGCCCAATCCGAATGAAGTGTCCAAATCGGTCTCTCAGGTCATTGTTCATCCATTATACCAAGGCTCAACCCATGACAATGACATGGCCCTGCTGCATCTCTCCTCACCGGTGACCTTCTCTAACTACATCCAGCCCGTCTGTCTGGCAGCAGATGGAAGCACATTCTACAATGACACAATGTGGATCACAGGCTGGGGAACCATTGAATCTGGTG
Seq A exon
GTAAGAAACAACATGTTTTTTAATGCTTGGGTCTACAGGACACATAAAATAACAGGGGAAAAAACTGGCAGCTCCTTTTGTCATTTGTGTGGGGTTGTCATGATTAAAAATTGAAAATCAAATATTGATTTCTTAACTCTTAAGTTAAAACATTGGTAATGTTGTCTAAAATTAAATATAAAACACACTGACAGTTAGTTATATTATGCAAAAGGTACTCTGAATGACAATGTTGTAAGTGAAGTTTCACAAACTAATTTTGAGAGGGGCATGTGATATGATTGACTGCAGCTGGTCCCTTTTAGTAATCATTAGCTAGCCCATTGGATTATTCCAAATCTAACTTAATAGTCCAGCTTAACTTTACTCCCTATATTCGTTTGGAAAGGACCCCTATCCACCCCTTCCACCTCCGCCTCATTTCTAGGATTAGGCGGCTCAGTGGCTCATAGGCTAGCACTGCTTTACAGCAAGAAGGTCGCTGGTTCAAGTCCTAGCTGGGCCAGTTGACATTTCTGTGCTTACATGTTCTCCCCGTGTTCACGTGGGTTTCCCTTAGGTACTCAGGTTTCTTCCCACAGTCCAAAGACATGAGACACAATTAAATTAAATAATAGTAACAGTCACAAATACATTATTACTGAGCTTCTCTAAGTGAGTATACACCAGTGTGGTTGGTGGCCTATTCCTATAGAGCTGTCTTTTAATAATCAATGAATAGGCCAAACGAATCGGGGGGAGCTCTTGAGAACTACCTGATCTCGTATGCTTTAAATTCTCATTGACCAGGTGGGAGCTTTGGGCTCATCTATCTCCAAGCTCACGGTTCTCTCCCGGGACAGCATGCCAAACCTGCTAATATCATTAAGCATTATCTAAGTGTGAACTCTTAAATCAAATTTGATTAGTTGAATACAGGATAAAACAAAGATGACATTTTACTCAAACTACAATTCAGAATTTCCAAATTTTAAAAACATATACAGTTTTATCAGTTTAGTATATTTTATTCCCATTTCACTTGCTTTTTTCATAATGTTTATACATTTTTTATTCTATTTAGCTGAATTTCTCTCATTATCTGTTTCGCAG
Seq C2 exon
TATCCCTTCCTTCACCTCAAATCCTACAGGAGGTGAATGTGCCTATTGTTGGAAACAACCTGTGTAACTGCCTTTACGGTGGTGGTAGCTCGATAACAAACAACATGATGTGCGCTGGACTAATGCAAGGAGGAAAGGATTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052905:ENSDART00000074848:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.3=100)
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:
TCGGCAAAGTCAAGATCTGCC
R:
TCCAGCGCACATCATGTTGTT
Band lengths:
352-1444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]