BtaINT0141178 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008676 | SRRM4
Description
serine/arginine repetitive matrix 4 [Source:HGNC Symbol;Acc:HGNC:29389]
Coordinates
chr17:58461043-58464098:-
Coord C1 exon
chr17:58464000-58464098
Coord A exon
chr17:58461200-58463999
Coord C2 exon
chr17:58461043-58461199
Length
2800 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TCTCTCTGCTCTGCATCCAGGCA
3' ss Score
8.63
Exon sequences
Seq C1 exon
ATCGCGAAGCCGGCCCCGAAAATCTCGCCGCCGCCGCCATCACCACTGCCCCTCACGGTCCCAGAGCTCAGAGTCCCGCTCCTCAAGCTGCGACAGCAG
Seq A exon
GTAACCCCCGCCCCGAGGCATCTCCTCACCCTGACCACAGCCAGAACCCGGCTAAGACACCGTCACCATCAGCTTTTTCTCCACCGTCACTGTTGGGGAAGCCGCTTTCCCCGCAGAGGGGCAGCCCCTGCCTCACACTTGGGCTGTCACCACTTCCTTGCAGAGGGGCTGCAGACAGAAGGACTTGCTGCCCCCACTTACAGGAACAGCAGCCACAGGACTTGCTAACACGGTGCTTCCATGCCAGGTGCTAAGCACTCTTCATGGTCCACTGCATGATCCCCTCTGCAACCCTAGGAAGGAGGCACCATCGTCATCCCCACTTTAGAGATGGGGAAACTGAGGCACAGAGAGGAACTTTCCAGGCACGTAGCTGCTAAGTGACAGAGCTAGGACTGAACTGGAGCGTCTGGTTCATTTGGCTGTCTCTCACTCAGGGTTGTTCTAAGCACAGAGAAGCTAAGTGACCTATGAAAGGCTACACAGCACAAGCTATCCAGTTCTGTGGCACTTCCGAGCCCTCTTGCTCCTAACATTGACCCTCTTTATGCTGACACATTGGCTGCCCCGGCCCGAGCAGGGGAAGAGGCTCTTGTGGATGAGAAGAACAAGAAAAACAGGGAGTGGGGCTTGGTGTTTGAAATTGTTGAGACCATTGGGAATGTCAAGGGCCCCTTGATGGTACCTGGCCAATTTCCAGATGGCAGAGACTCTTTTATTCTTTCTTAAGTCCTTCTCACACTTGGCCTATGTAGTCACGCAGTCACCTCACCTGGGAAGATTTAAAAATCTCACTGTCCTGGTCCCGCCGCATTCCCGGCTAAGTCAGAATGTCTACAGGAAGGAAGAGGAGGAAGAGAAATAGGGATCTAAACTCTACTCTGAACCAGGCACTGTGCTGCAATTGCAAATAGATTCTGTCTCTTAATCATCCCCGTCACACCATGAGCCAGACCACAGCTTCTCTGCCTTGGCTGCTCCATGATTGCTTTGGAAGTCTAAAAATACCAGTGCCTGGATCCCATCTCCAGACATTCTGATCTAATTCAGATATGCGTGGAGCAGGTGTGAGAGCAGCCCCTGACATCAAGGACTCGCCCCAGTAGCTGTGGTGTTCCCACATCACACAAGGCTGCTCTGTGATCCTGAGTGGTCCAAACAAAACCAAGACCCTCTTGGAACCAGGTGCAAGCCTGGACAAAACAGGGACATTTTTCACAACCCCAAAGTGACCCTGCATCTCTCCATCCTCCATCTTTACCAGTGATAGCCTTAACCTCAGTCTAGTCTCCCCTCCTTCTAATTAAGACTGGTGAAGACACCCAATCAGAGAATTACCTCTGTCCCCTGACAGCATCCAGTCAGATCAAAGCCCCAGCTCTTTACATGCTCCCCAGAGTCCCCAACCACACGCTCCTAATAGATTCTCTGTGACCACTCCCCACCCTGACAGAAACGTCCTCCACTCTCCCATGGTGCGTATTCTCCATCACTGCAGGGAGCAGTAACAAGATGCTTGTTTGAGCACAAGGTGCCCCCGTTGGCCTTTGTCCGGAGGGCATTGACACACTGAGCTCAACTGCATTATCGACATTTACAGCTGAGAAGCCTGCGTGTTGGTGGGCAGAGGGGTGACTGGCAGAGCTGGAGCCAGGACCCAGGTCTGTGTGACTCAGCCCAAGCCTGGGTGGGAGGACGGTGCAGATCCTGCTTGCAGACTCTCAGCAACTGCACTCTACCCTTTCTAAGGCTTACCTCTTCTGAAAGGGGTACATATCACAGGCCCTCGCCCCAGCCTTCCTCCTGCTAGCACTTCTCCTGCTGCTCTTGCCGCCTGAGCTTCCCAGTGCTTGTTGTGCTAAGGGACACTCCAGCAGGTGTGGGAGCAACCTGAGAGCTGACCCTTGGGCCAGTAGAAAAGTGAGAGGCCCTAGAGCAGAGAGGGACACTCCAGTGCAAGAACCAGAGGTACTGGTTCCCACAGGGCCCTCGTTCTGCCGCTACAAGCTGTGTGATGTCAGGCAGGTTCCTAAACATCTCTGAGCCTCAGCTCTCTCATCTGGGAATAAGAAATAATACCTTCCCTGTCTATGTCTTTGAGTTGGAGAGAGGATTGTGAAAGCACCTTAAGAAGGGCTTACAAATGCCATGAAAATCCATAAGGTGTTATTTTTATCACTACTGTGACTCAGAGCTAAACAGTAATGCTGAGTCCAAATACACCCTTTCTAAGGAGTCAGAGATTCCTTTAGTTTCCAACACAGACAGGCAGCCAGATCTACATCTGACAAGCTTACAGAAGGCATCTTTGTCGTTTTCGTCAGATTTTTTTTTCAAAAGTTTTGGGTGACAGTCAATAAGATGCCTCTATTTCACAGATGGTGAAGCCAGATACACAAAGACACACAGATATAAGCAGCTACATTTATAGACAAACACATGAAAACACAGATGGACACACCCAGACGTACACACAGTCACGTACAGACAGGCAAGCAGAGAGACAGTCAGAGGCACACAAAGGACAGTAAACGGAATCAGGATCATCAGGACCCTTTCTGTCTTCACAGCTGCATCCCCAGCCCCCACAGCAGTGCCAGGTATATGAATTCACACTCGTCAAACAAACAAATGAGAGAATGAATGAACACGGACGGGTGGGCGGGCAGAGGGGTGCATTCATAGTTTACACAGACAACCCAAACACACTCTGCTGTCCTCAGATCCTATTAGTCCTTCAGTCACCTCTCTGCCATGCTCCCCATCAAAAAACCCTCAGGTCTCTCTGCTCTGCATCCAG
Seq C2 exon
GCACCGTGGCCGGTCCCCCGAGGGAGGGCGGAAGTCCCGTCGAAGGCACTCTCGCCGCTGCTCCAAGACCCTCTGCAAGGCCAGCCCAGAGGCCCGGTCCAGCCCCCAACCCAGCCAGCCCCTCCAGATGCTCAGCTTCCTGTCAGCCAGGGGTGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008676:ENSBTAT00000011438:6
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=0.962
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development