BtaINT0141181 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008676 | SRRM4
Description
serine/arginine repetitive matrix 4 [Source:HGNC Symbol;Acc:HGNC:29389]
Coordinates
chr17:58441395-58445136:-
Coord C1 exon
chr17:58444933-58445136
Coord A exon
chr17:58441506-58444932
Coord C2 exon
chr17:58441395-58441505
Length
3427 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GGCTGTCTCCTCTCCTCCAGGTC
3' ss Score
11.41
Exon sequences
Seq C1 exon
AGGATTTCAGTCACCATGTCTGGAATGCACCGAGGTGAAGAAGTCCGATTTGGTTCCATCCACAGCCCGGAGCTCCCCCATGAGAGGGTGCTCCCGAAGCTCCTCCTACGCCAGCACACGCTCCTCCAGCCACTCCTCCCGATCCCCAAACCCCAGAGCCTCCCCCAGGTACACCAGGAGCCGATCCACCTCCTCTGGGAAAAG
Seq A exon
GTGAGTGCAGTTTTGACCTAGACTCTTCAGCTAGCTAGGGTAACTAGACATGTCCTTTGACCCCCAAGGAACAGGAATGGAACAGAGTTCAAATGAGTTCAAATGAGTTCAAATACCCATTCTATCCATTACTAGCTGATGGCTTTGGGTGTCAGTTAACCTCTCTGATCCTTAGTTTCCTCCCCTACTGAAATGAAAACTGTAATGTATCTTACCCTGAAGGATTGTCCTGAGGACCATTAAACACATAAATCAGTACTTAGAACGTAATATCAGTTTTGACTGTTGTTATTGTCATGAGGATCCATTCATGTGTATCAATTATCTTCTGCTGCATAAAAACTGCCCCAAGGCGTCCCTGGTGGTCCAGTGGTTAAGACTCTATGCTTCCACTGCAGGGGGCACAGGTTCCATCTCTGGTTAGGGAACTAAGATCCCACATGCCATGGAGCACAGCCAAAAAAATAAATAAATAAATGCCCCCAAATGTAGCATCTTATCAGTGAGTTTTTACTTCACTCCTGATTCTGTGGGTCAGCAGTTTGGGCTGGACTCAGCTGGTGGGTTGGCTGGGGGCTGGCTTGTTTGGATGACCCCAGCTGACCCATCTCTGCTCCATGTGGCCTCCCATCTTCTAGCAGGTTTGTCTGGGCTTGTTCACGTGGTGATGGCAGGGTTCCAAAAGAGATCAGTAGTATGCAAGTCCTCAGCCTGGAACAAGCATGATCTCTCCAGCCATTTCCTTAGCCACTGCAAGTCACAAGACTAATCCAAATAGATACAAGGGATGCTCCTCTTAGTGGGAGGAACTGGAACAAGCATGATCTCTCCAGCCATTTCCTTAGCCACTGCAAGTCACAAGACTAATCCAAATAGATACAAGGGATGCTCCTCTTAGTGGGAGGAACTGCAAAGTCATCTTGCAAGGGGCATGGATACAGGGAGAAGAATTGTCCCCATCTTTGCATTTTACCACTCAATGCCAATAACCATTGGTTATTACTTGATTTTCTCATGTGGAATAATGATATAGCAGAATGCAGAGACATGAGATCTCAGGAATTGGAAGATTGCATCCAATCTAATCAACCCATGGCTTCATGGAGTCCAGCGTCCCTCTACAAACAAGAACTTTCAACAGCAACCAGACTGTTTCTCTGTTGCAACCATATAATCAAAACACAGTTACTTATGCAGGTGTTTACCTCAAGACCAGTTCATTCAGAATAAGGGGGCAAGGAATTCAACATGATAGAGTGGCATAAATAGAAGAAAAAATCAGGCAAAATAGAAAATGAAAGAGAGAAATAGAATTAAATCAGGAGGAAGGTTAACTCCCAATGGCAGGTCCTAACTTTCTGTATAGTCAGCCCTCTGTACTTGGGAGTTTCACATCCCTATTTATGAAAGACCAGTGTATTCAATGTACTCTGCCATTTTATAAAAGGTACTTGAGCATCTACAGATGTTGTTATCTACAGGGGCTCCTGGAACCAGTCCCCACAGTACTGAGGGGTGACAGTAGTCACTCTGGAGATGTGCTGCCAACGTGACTCTAAGCTCCCTGGCAGAGGAAAATGGGAAACTGTTCCTTCACATTATAAACAAAAAAGATACAATTGGAACTAGTTGCCTGGAAGAGCAGTTATTTCTGATTTTTAAGTATGAAAAATGATTCATCTGGTTCCACAGAAAAAGGACGGTATGTACCACAGTGGATAGAAATGTCTGACATCCTTTCAAAGTGTTCAAAAACATGTTTCATCTTCACACTCTTTACTAACGTCTCTCAATAAATGGGGAAAGAGCAAGTTGGAAAAAGCAAATTTTTCGGGGGCCACAGCTGGACACTATTGACCCAGGAGCTATTCCTTGTCCACACTCCTTTCCTCACCCTGGACAGTATGTAAGAATAGAGTCCCAGAGCGATAGTTATTATGATCGCCTAAGAAAGTAGGAAGGGACTAAGGAACATGTAGGTGAGGGCAAGTTAGAGCAAGACTTCTTTTCAAATTGAAAATAGATAGGAAAACTTTGGATAATGTCCACCCTACTCATCCCTGCCCATGGCAGACATTGCTAATCGATCACAGTGCTCTTTCCCACTGAACACAGATATGGCCACATAATCCCTCCCAACCCTAGCAGGAACAACTAGCAGATAAAGTCATCAATTGTGAAATGAAAATTACTTGAAAGACTGAGGAAGCAGGGTAGATGTTTCCGGGAAACTGGTGGAGAAACCAAGGGATTGGTTTCTCTAAAAGTGGGAGGCTTTAGCAAGAGGGAAGAAGTCTGGAAACAGCATCAGATCAGATTAGATCAGATCAGTCGCTCAGTCATGTCCGACTCTTTGCGACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACAAACTCCTGGAGTTCACTCAGACTCACGTCCATCGAGTCAGTGATGCCATCCAGCCATTTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTCCAGTGAGTCAACTCTTCGCATGAGGTGGCCAAAGTACTGGAGTTTTAGCTTTAGCATCATTCCTTCCAAAGAAATCCCAGGGCTGATCTCCTTCAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTGAAAAGCATCAATTCTTCGGCACTCAGCCTTCTTCACAGTCCAACTCTCACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAATAGAGGCTAGTAATTTGGATGCATACAGTATCGTCCAGCAGAAGTCAGGAGCATCTTGTAGCCAAACAGACGTGGGTCCAAACCCCTTACTAGCTTAGTGACCTTGAACAAATCACATCATCTCTCTCTGCCTCTGTGTCCCCATCTACAGATTGGGATTGATAACAGAGTCTAACCCTAGGAAGTGCTGAGGATTAAATGGGATTATATACACAAAACATTTAGTTCAAAATCCGGCACATAGTAAAATACATAATAATCATATAATAATAAACATTTCCTGTGTGCTGGCTGTACACAAAATGCTAAGTAATTTACCCTAATTTACTTGTTTAATTGACAATTCTAATTGGGTAAGTACTTTTACCATTTTACAGATCAGAAAAGTGGCCCAGAGAAGTGAAATCACCTACCCAAGGTCACACAGCTACCAAATGGCCAGGATAGGAAGAACTCAATAAAGGGAAGTTGTTGATAATAATTATTATTAATCATCCAAAAGGGAGGGGATTTCATCCTCAGGTAAGGGCTTGAGTTCCCCCACCTGACCTCCAGAAACAAAAAGGCCTGGTGACCAACTGAATAAAACGCTAGACAGAAGGGTCAAACCCGGCGGAGCTCAGCAGGCCCCTCAGCGGCTGTCTCCTCTCCTCCAG
Seq C2 exon
GTCCTCCTCGCGCTCTCCCAGCTATTCCTCCAAGTCTGGCAAGAGAAGCCCGCCTAGCAGAAGCTCTAGGTCGCGCCGCAGCCCAAGCTACTCCCGCTACAGTCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008676:ENSBTAT00000011438:9
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:
NO
A:
NA
C2:
PF152301=SRRM_C=PU(10.6=18.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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