GgaINT1025037 @ galGal4
Intron Retention
Gene
ENSGALG00000010081 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr4:32689663-32691486:-
Coord C1 exon
chr4:32691389-32691486
Coord A exon
chr4:32690090-32691388
Coord C2 exon
chr4:32689663-32690089
Length
1299 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TGTTACTCCTTCTTTTACAGGCA
3' ss Score
10.88
Exon sequences
Seq C1 exon
CCAGAGGAGAGGAGACATCACAGTCTCTGGGAGGGAAGAAAAAAGCCAAAGCTCTCTATGATTTTAATGGTGAAAATGAAGATGAGCTTTCCTTCAAA
Seq A exon
GTAAGTGCCTCTTTTTTTTAGTCTTGTTTTTCAGCAGATCTTGCGCTCCTAAGGCATGCTTAAAAAATTAATTACCCAAAATAATTTTGGAACATGAAAAAACAGAGCTCAGACATAATTATTAATGTATTTGATATAGAGCAACTATAAAAATTTTGGTCCTTACCCTTGGCAAAATCTTCACTGAGGGGCACTGAAAGGAAGTCAGAAACTATAGTCTTTCACTGACTTCCCTAATCCACTAAGTATGACAAGACCAACACTTCATTTTGTAGTACATTCAGTTCTTTATCAGTTAATAAGGTCAAAGGAGCCTCTTTTTTGACAGGAATGACAGCAACATGATGGTGTGATGATAAAGTGGCAGCATTACAGCAGGGCTATCTCTAAGAGAGACCTAGTACAGCAAAATCTAAAAGTTGACCTAAAAGTTTGGCAGCACAATCCTTAGTTGCCATGTGAGCAAAAGGAAAATGAAGTACTTGCTGTATGCCTAGATAATATGAAAATACACAAAGAAACCGTATGTCTTTATAATTAAAAAAAATCATATTTAAGTAAATGTCCTCAAAAGCAAGTTTCTAAGAACCAGCAGACTTCTGCATGAGGTCCAAGATTGCATTTATCAACTGGAACACATTGCTTTGTGAACGTTAGAAAGAGAAAATAATTAGTTTCTGCATTAGCAGCTTGCCTTATGGAAGGATGGATGATTCTTCAAAGCAGAAAAAGGGAACTGAGGTACTGGCAGAAAGGCTAGAGCTATGCCAATACTTTGAATGAAGGGTATGGCATGGGAAGATGAAAGCAGGACTAAGGATCAAACATGGAAGATAAACTTTATTTTCAAGGCCACGCTGAGCTTCAACTGCATTCCTTTTTGAGCAAGTTTCCAAAGGAAAGAGGGAAATATACAAGTTGGGGAAAACACTGGGACTAAATTGAAAAAAAATCTTTGAAATGTTTGAAGAAAAACCCTCATACCAGAGCAGGAACATGCACAGGGAGTGCAGCCTCTAAGCCACCTCTGTTACACACCTCCCTACTTGCAGGGCTCAAGCATCTCAGGAAGTTATGGGGCAACTCTTTTTTTCCCCTCCCACAAACTGGTGTGTTTGACAAGTATTTACCCTAAGAGACAGTTGGGTAAATGTAGTTTCAAAGAAATCTAACAGGAGCAACCATCTCCAACTACCATTCTGCTTGATTGCTATTAATTGCTTCTGAATAACATGAACAGTGCATGCCTTAATATTACATGGAAAGCTGTAATGGCTCATGTTACTCCTTCTTTTACAG
Seq C2 exon
GCAGGAGATTTTATAACAGAGCTGGAATCTGTAGACGAGGACTGGATGAGAGGAGAAATACAAGGAAGAGCTGGGATATTTCCCAAAAACTTTGTTCAAATTTTAAACACACCATGAAGTGTTGCCTGTCTTTGTACTCCCTGTGTCTGGGAGAGAATGTTTGCAGCAAAGACATCAATGTATTCTGACTATCTATGTTTTGCACTACTTATTCTGGACAGTCATACTAGTATCTTGCAGTCAAAGAAGATCTTAGTCTTTTGTGACCATGTACTTAGCCATGCTTCAGGAAAGCTCTGAGAGCAAATACAGGCACGATTTTTAGTGGTCTCCAGCTAGGGAGATACTGTGGTGCAACACCATTTTAACTTAAATAGTATTCTGTCATGTTTACTATCTGGTATTACACTTATCATGCACAACCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010081:ENSGALT00000016385:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146041=SH3_9=PU(30.6=45.5)
A:
NA
C2:
PF146041=SH3_9=PD(65.3=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAAATGAAGATGAGCTTTCC
R:
TCGTGCCTGTATTTGCTCTCA
Band lengths:
349-1648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]