GgaINT1025023 @ galGal4
Intron Retention
Gene
ENSGALG00000005036 | SH2D3C
Description
SH2 domain containing 3C [Source:HGNC Symbol;Acc:HGNC:16884]
Coordinates
chr17:4919955-4920861:+
Coord C1 exon
chr17:4919955-4920532
Coord A exon
chr17:4920533-4920745
Coord C2 exon
chr17:4920746-4920861
Length
213 bp
Sequences
Splice sites
5' ss Seq
GTGGTACGG
5' ss Score
6.61
3' ss Seq
CCTCTTACCTTTCTTGCCAGGTT
3' ss Score
9.63
Exon sequences
Seq C1 exon
TAACACGGCTAAAGCCTCACGCCTGCCAAGCAGCTGGGATCGCCCCGGCATCCCCGGTCATCAGAAGGTCCAGCGAGCCCCAGCTGTGCCCGGGTAGCAGCAACAAACCTCTGCCGGACCCTGCCCACAGCACCCACTCCACGCCATGCCACGGCTACGCCCGCGCCTCCCCCTCTCCCTCTGTGAACAGCTACAGTGACCCCGACACGGGGCACTACTGCCAGCTGCACCCCACCTCACCCAGCAGCAGAGAGCGGCCGGCTCACGACACCAAGCAGCTGCCAGCAAAGAGCTACGTGGAAAGGCTAAAGGTGGAGGAAGGGCAGAGAGGGACTGTGGAGAATGGCTCTGGGGAAGCGGAGGGAGGGCAGAGGCTGAAAGGAGAGCGGGACTTTGTGGGCTTTGTGCCCCCCACCGTGGAGACGTGCTCCTCCTTCAACCCGGCAGCATTCCAGTCCCTGCTCATCCCCCTGGAGAATAAGCCCCTGGAGATGGCTGTGCTCAAGAAGGTTAAAGAGCTGGTGGCGGATGCGGATGCGAAGACACTCGCCAAACACATCACCAAAGTGGACTGCGTG
Seq A exon
GTACGGCGGGGCCAGGAGGGAGGGACGGGCACTGCTGCCCTCCTTTTGCTCCAGGTTAACAGGGAAACAGTGGCCCTGAGCCATGGAATCCCTGAGCGTCAGAGCATCCCTGCTCTCAGCTCTGCTGCCCCGCATCAGCAGGCAGAGGCTGGGCTGGGGCAAAGGACTGCCCGAGGCCGCTCAGGTCTAATCACCTCTTACCTTTCTTGCCAG
Seq C2 exon
GTTGCTCGGATATTGGGCGTAAGTGCAGAGATGCAGCGGCTCATGGGGGTGAGCTCCGGCATGGAGCTGCTCACCCTGCCCCATGGCCACCAGCTCCGGCTCGACCTGCTGGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005036:ENSGALT00000008075:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.653 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(11.2=8.8)
A:
NA
C2:
PF0061714=RasGEF=FE(25.0=100)
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:
AGGCTAAAGGTGGAGGAAGGG
R:
TGCACTTACGCCCAATATCCG
Band lengths:
303-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]