DreINT0134340 @ danRer10
Intron Retention
Gene
ENSDARG00000088202 | sh3d19
Description
SH3 domain containing 19 [Source:ZFIN;Acc:ZDB-GENE-050522-481]
Coordinates
chr1:23703626-23705250:-
Coord C1 exon
chr1:23705207-23705250
Coord A exon
chr1:23703813-23705206
Coord C2 exon
chr1:23703626-23703812
Length
1394 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCC
5' ss Score
7.84
3' ss Seq
TTTTTGTTGTTTATCTACAGGCT
3' ss Score
9.99
Exon sequences
Seq C1 exon
GAATGGCCAGCTCATCTACACAATCATCATACAGAGCCAGTGAG
Seq A exon
GTACCCATCTTACCATCTGAACTCATTCATGATTTCCTGTACTAGCGGAACAGCACTTAAACTCACTCAAAAATAAAACTTTACTCATCCTCAAGTGGTTCCAAACATTAACATTATTTATTTATTTATTTATCATTTTTCAGTTGAATAAAAAAAAAAGTATTTTGAATAAAGCAAACAGCAGATAACCACTGACATTTACTTTATCTTATTTTTTTAGCTAAAATGTCCCATTGAAGTAGCAATTAAACAAAATGCTTACTCATCCTGACACTCTGCATGACTAACTTTATTCTGTGAAACACAAAAGGCAGAAGATGCATAGAATGATGATTCTAGTCTTCTGTAAATTGGGATTATATAAATGGCAACCTGCTCATTTTTGACCGTACATTTCATTTACTAAAGCAATCCTGCATTCACTTCACTTTATTTCATGATAGGAAGTAAATTTGTTATTTTGAACAAACCACTTGTCTTACCTTCTATAGTTAGAAGTTTCTATAAGTTTGTGACATCCAATAAAAAAGTATGAATAGTAAAAATAATGTAGACAATATTATGAAATTCATATTAATATTTAATGATTATTCATTTAAAGACAAAATGATTAGCCCTTTGGTGATATTTTAATTCAGTTTCAAATATTTCCCAAGTAATGTTTAACAGATAATTCGCTGAGTTGGGATTGAATCCCAGTTGGACCAGTTGGCATTTTTGTGTGGAGTTTGGATGTTCTTCATATGTTCATGTGGTGCTCCTGTTTACCCCATAGTCCAAAGACATGTGGTGTGTAAATTGGATGAAATGAAATTGGACATTTTCTATCAGAAATATTGAGATATATTGAACTTTGACCAACAGCAAACCGGCCTTTGCATGGTGCAGTGCTTTCCGTGTCCAGCGTGAAAGCCTCTACACTCGGTGCAGCTGGAGGGAGAGTGAAACCAATGAGCTGAACTCTAAAGTGCAGTGCAGCATAGCATAAACTTTTTTTCAGCGTTTACTTTCACCCATTTTTTATCCTTCAGGTGAAAAATTCAAAAGTACATTTCGGCAGTAAAGATATACATTCGGTTATTGCTTTCACTACACTACTAGCAAGACATTTAATATTATTTAAGTGGAAAAGAGTAGACCCCCAACACATGCTGGCTGGATAAATGAAGTAATGTTGTATGAGTGTGAGAATGTGAGCATATTGGAGCATATATGGGTGAGCATATATGGGTGTTTCCCAGTACTGGATTGCAGCTGAAAGGACATTAAACATATAATTCAAATTTCAATAGAGAGCTAATTATTTTGCCCTCAGCTAATGTTTTAAGTCTCTTGAAGTAAGGGAACTGTGTTTGCAGGTAAAGCAGAATGTTCTTTTTGTTGTTTATCTACAG
Seq C2 exon
GCTGAAAGCAATGGTGCAGAATGGGCTGTAGCACTTTATGACTTCACAGCAGAGACCGAGGAGGATCTGCCCTTCCAGCAGGGAGACAGAATCCTGGTCACAGCTCATGTAGATGATGAATGGTGGAGCGGAAGAATCAATGGCAGAGAGGGCTTCTTCCCTAAAGCGTTTGTGGAGAGTGTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088202:ENSDART00000126950:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.467 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001823=SH3_1=WD(100=73.0)
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:
GAATGGCCAGCTCATCTACACA
R:
TGCTACACTCTCCACAAACGC
Band lengths:
230-1624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]