GgaINT0005860 @ galGal3
Intron Retention
Gene
ENSGALG00000007388 | SRRM4
Description
NA
Coordinates
chr15:9997594-9998996:-
Coord C1 exon
chr15:9998880-9998996
Coord A exon
chr15:9997732-9998879
Coord C2 exon
chr15:9997594-9997731
Length
1148 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
ATCTGGCCCTTTCCCCTTAGGGA
3' ss Score
10.56
Exon sequences
Seq C1 exon
CCCCAGGTCCTCTTCACGGTCCCCCAGCTATTCCTCCAAATCCTGCAAAAAAAGCCCTGGAAGCAGGAGCTCAAAGACTCGCCGGAGCCCCAGTTACTCCCACTACAGCCCTACGAG
Seq A exon
GTATGACTGTCTCTACATTGGTATGTGCTGCCTCATGCTTTTCCATTGCCTCCACCACTTGCTTGTACTCCAGCCCACTTTATGGTTCCTTCTGCCAGCTCCAAACTTCCCCCTCAGCTTCCAGGGTTGGAGGGAGCAGGGAGACATGGAGCATAGCACATGTCCGTGCATTACGCTGATCTGCAGTCCAGTGGAAATATCTACCCATTTATTGCCTCAGAGCAATCAGTGCAGCAGGGAAAGATGCTCTGCTCTTCCAAACTGCAGCTCTGCCAAGGAGGTGGCAGGCCCTAAGAAGTGTCCCTGCTGCATGGGCAGGTGCCAGGTACCCTCATGCTGGCACTCACAGAGCCACACATGGGGAAACACAGCCCAGGTGACTCTGCTCCACACCCTGTAGAAAAAACACATCTCACAGCTTAGCCCTAGAGACGCTTTTGGGCAGTGTTTTCTGGTAACATCTCTGCCGTTGAGCGTGCTGTGAGCATTTGGCACCCTTAAAATGTTACATTCGCAGGGCCTGATTCTGCAAGCTGTGACAGCCCCTGCTCTGGTGCAGAACATTTCCTGCACACAAGGATCAGGTCCTTGACCTGTAACGTATTGCTTTGCAGATGGCATTGAGAAGGGAACGGGGAGTATGAAGTCATCTACCCTCCACAGCAGGGCCTGTGCTGACGTGCACAGGGATTTAACAAAAGAGAAAACCATAGCAACCCCAGCACTCCTTCTGGTGAGCCGTGCACAACCCTGCACAGCTACCTGGGGCCCTCTGCACACGTGGGGCCTGCTGGCAGGGCTGTGCTCGCCCGCTTTTGCAGCACAGCCAGCAACAGCAGCTTTAGCAGCAGTGTGGAAATACCAAGTGCATCCACAGAGGGATGGGGAACCATTTAGCTTTGCGATGCAGGGCTGCTGGGAGACGCTGTTGAAACCTCCCTGCAGCCCACAGTTGCTGGGTGTCCATCTGTCAGGCCACTGAGTGTCCCACTGTCCAGCAAAGCGCAAGGCTGATGCCACCAAAACACCGAGCAGAGCGCTTGCCACTCAACTGGGTTGTTGCCTTCACGTTCAAACCTCATCCGGCCGATTTTTGCACCTGCAAAAGCTCAGCAGTGATGATTTCCAATCTGGCCCTTTCCCCTTAG
Seq C2 exon
GGACCGTGAGCACAAGCACAGCTCCAGTGAGAAGGAGTCACACCGGCAGCGGGACCGGCAGCGCCGGCGCTCCTATTCCCCCCTGAGGAAGCGCAGGAGGGACTCTCCCAGCCACCTGGAGGCCCGGCGCATCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007388:ENSGALT00000011947:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152301=SRRM_C=PU(12.1=20.0)
A:
NA
C2:
PF152301=SRRM_C=FE(69.7=100)
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:
CCCCAGGTCCTCTTCACGG
R:
CTCCAGGTGGCTGGGAGAG
Band lengths:
238-1386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]