BtaINT0141172 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008676 | SRRM4
Description
serine/arginine repetitive matrix 4 [Source:HGNC Symbol;Acc:HGNC:29389]
Coordinates
chr17:58440136-58441505:-
Coord C1 exon
chr17:58441395-58441505
Coord A exon
chr17:58440277-58441394
Coord C2 exon
chr17:58440136-58440276
Length
1118 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
CCATCACCGCACCCCTTCAGGGA
3' ss Score
5.52
Exon sequences
Seq C1 exon
GTCCTCCTCGCGCTCTCCCAGCTATTCCTCCAAGTCTGGCAAGAGAAGCCCGCCTAGCAGAAGCTCTAGGTCGCGCCGCAGCCCAAGCTACTCCCGCTACAGTCCCAGCAG
Seq A exon
GTATAGGCCCCGCCGCCAGGCACTGACCCCGCCCCTCGAGCTAGGCTCCACCTCCGGCCACGTTCCTTTGTTCAGGTCCAGAATCTGCCTGCAATGGAAGAGACCCCGGTTCAATTCCTGGGCCGGGAAGATCCGCTGGAGAAGGGATAGGCTACCCACTCCAGTATTCTTGGGTTTCCCTGGTGGCTCAGCTGGTAAAGAATCCACCTGCAGTGCAGGAGACGTGGGTTTGATCCCTGGGTTGGGACGATCCCCTGGAGAAGGGAACGGTTACCCACCCCAGAATTGTGGCCTGGAGAATTTCATGGACTGTATAGTCCATGGGGTCACAAAGACTCAAACACGACTGAGCAACTTTCACTCCCTCACTCATTCCTCTCCCGCATCGTCTCTCTGGAGCATCTCCCTCAGTTCAGTTTGGTTCAGTCGCTCAGTCGTGTCCGACTCTTTGCGACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCGGAGTTCACCCAGACTCACGTCCATTGAGTCAGTGATGCCATCCAGCCATCTCACCCTCTGGAGCATCTCCCTAGCTCTGTTCAGTTCCTCTCAGGTCAAGCCCCGCCCGCTTATGGATGGGAAGATGTCTCAGCATTCCTAGTGGTTCCCTATGTCCTATCCGAGCGGCGGTGAGATCCCCAGAACTTCCCTGCATCCTCATGTACTTACCCCAAACCCTCAGCCACACCCCGGAATTCATATCCCCAGCCCTCAGCCTCTTCACACAACTAGTACTACCCCACATCCCTATATCCAGAGCCCCTAATTCTGACTTCTTACTCAGCACCTGGGCCCACCCACCTAACCTTCATATCCTGACCCCTGAAAGGCTCACCTTCAAAGGCTGACACCCCTCCCCACGCCCAGCTGCACCCGTCCTCAGTAGCCAGTCATCCACGTAGACTCTCCCATAGCTATGCTCTCCTCCCTGGCGGCCCGTGCTGACCCTGTCCCCTGCCCCAGCGGGGTAAAGTGCAAGAGGGCGAAGTGGGTGCCCTTCTCCCACACGCTCACACCGAAAGGCCAGGGCAGCCTCAGCTCCCCAGTAACCACCCCATCACCGCACCCCTTCAG
Seq C2 exon
GGAGCGGAACCCCAAGTACATCGAGAAGGATTCGCAGCAACGCGAGCGCGAGCGAGCTCGGCGGAGACGTCGGTCCTACTCGCCCATGCGGAAGCGCCGGAGAGACTCCCCAAGCCATCTGGAGGCGCGGAGGATAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008676:ENSBTAT00000011438:10
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(10.6=18.4)
A:
NA
C2:
PF152301=SRRM_C=FE(71.2=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:
GTCCTCCTCGCGCTCTCC
R:
TTATCCTCCGCGCCTCCAG
Band lengths:
248-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development