GgaINT0123787 @ galGal4
Intron Retention
Gene
ENSGALG00000005036 | SH2D3C
Description
SH2 domain containing 3C [Source:HGNC Symbol;Acc:HGNC:16884]
Coordinates
chr17:4919636-4920532:+
Coord C1 exon
chr17:4919636-4919760
Coord A exon
chr17:4919761-4919954
Coord C2 exon
chr17:4919955-4920532
Length
194 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTCTCTCCTGCTCCTTGCAGTAA
3' ss Score
8.92
Exon sequences
Seq C1 exon
CGTGTCCCTGCCGCACCACAGGGACATCATCCGCAACTGTGCTGTCAGCGTGGACCAGATCCAGGACCTGCACTCCCCAATGTCACCCATCTCAGAGAACCCCACCTCACCCGCGTACAGCACAG
Seq A exon
GTAGGCATCACCCCGCCGGGCACAGCGGGACACGGCTCAGGCTGAGCCCAGCGCAGTCATGGGCCCGGGGAGGGGGACAGAGCTGGCTGTAAGGACAAGCCCCTGGCACGGAGCATTGCCCTCCATACTCGGAGCATCCTTGGTGCGCACACACCTCCAGGCTCTGCTAACAAGTTCTCTCCTGCTCCTTGCAG
Seq C2 exon
TAACACGGCTAAAGCCTCACGCCTGCCAAGCAGCTGGGATCGCCCCGGCATCCCCGGTCATCAGAAGGTCCAGCGAGCCCCAGCTGTGCCCGGGTAGCAGCAACAAACCTCTGCCGGACCCTGCCCACAGCACCCACTCCACGCCATGCCACGGCTACGCCCGCGCCTCCCCCTCTCCCTCTGTGAACAGCTACAGTGACCCCGACACGGGGCACTACTGCCAGCTGCACCCCACCTCACCCAGCAGCAGAGAGCGGCCGGCTCACGACACCAAGCAGCTGCCAGCAAAGAGCTACGTGGAAAGGCTAAAGGTGGAGGAAGGGCAGAGAGGGACTGTGGAGAATGGCTCTGGGGAAGCGGAGGGAGGGCAGAGGCTGAAAGGAGAGCGGGACTTTGTGGGCTTTGTGCCCCCCACCGTGGAGACGTGCTCCTCCTTCAACCCGGCAGCATTCCAGTCCCTGCTCATCCCCCTGGAGAATAAGCCCCTGGAGATGGCTGTGCTCAAGAAGGTTAAAGAGCTGGTGGCGGATGCGGATGCGAAGACACTCGCCAAACACATCACCAAAGTGGACTGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005036:ENSGALT00000008075:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.465 A=NA C2=0.653
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061714=RasGEF=PU(11.2=8.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCCCCAATGTCACCCATCT
R:
AGCTGTTCACAGAGGGAGAGG
Band lengths:
246-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]