GgaINT0005861 @ galGal3
Intron Retention
Gene
ENSGALG00000007388 | SRRM4
Description
NA
Coordinates
chr15:9996801-9997731:-
Coord C1 exon
chr15:9997594-9997731
Coord A exon
chr15:9997066-9997593
Coord C2 exon
chr15:9996801-9997065
Length
528 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GCATCTCTCTGTCCCCACAGCGC
3' ss Score
11.12
Exon sequences
Seq C1 exon
GGACCGTGAGCACAAGCACAGCTCCAGTGAGAAGGAGTCACACCGGCAGCGGGACCGGCAGCGCCGGCGCTCCTATTCCCCCCTGAGGAAGCGCAGGAGGGACTCTCCCAGCCACCTGGAGGCCCGGCGCATCACCAG
Seq A exon
GTATGGAGACATCACACCTGGGGCACGTGGGCTGCCCTCTGTCCCCAGCCCCCCCCTGGTGCAGGTAGCTCCAGGAGCAAAGTGGTTTCCCTAGCCCTAACTCTGCCTCTCCTCCAGCTGGAGGATCTGCAGCTGGAGGCAGAAGGAGGATGCAGGGGTCTCATTTACAACCACAGAAGAAAAAGGGCAGATAAATCAGAGCAGGGATTCACCCACCCATCAAGTACAAGGTGCAGCACGCTTTTGCTTCACCCTCTCCCGTGGTAGATGTCCCACGCTATAGACAGTCAGATTTGACTCTAACTCTCAAGCTGAGGGCTATTTGGGAAAACATCAGGCAGAGCCTCAGACTTGATGCATGGTGGCCGTGGGGGTGGCTGGCTGGAATCCCAATGCCTGCCAGCTACCTGCAAATAAAACCAGACAAATCTGAGAGGTGTCGTGCAGAGTAACCAACGTATTTTGGAGATCTCGGCAATAAATCTGTCCTTGTGTTCCTGGTAATCCCGCATCTCTCTGTCCCCACAG
Seq C2 exon
CGCCCGCAAACGCCCCATCCCCTACTACCGGCCCAGCCCGTCCTCCTCCAGCAGCGCCAGCAGCTATTCCTCCTGGTACAGCAGCCTCAGCCGCTCCCCGAGCCGGAGCCGGAGCTACTCCAGCCACCGGACGAGCCGCAGCCGCAGCTGGAGCAGCAGCAGTGCGGAGGGCAGGAGCCGCAGCAGGAGCTCGGGCCCCAGGAGCAGCCGCAGCCGGAGCCGGAGCTATGACTCAGGAGGCAGCTCCGACAGCCTGCGTCGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007388:ENSGALT00000011947:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.955
Domain overlap (PFAM):
C1:
PF152301=SRRM_C=FE(69.7=100)
A:
NA
C2:
PF152301=SRRM_C=PD(16.7=12.4)
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:
AGTGAGAAGGAGTCACACCGG
R:
TGCCTCCTGAGTCATAGCTCC
Band lengths:
355-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]