BtaINT0069997 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018085 | GTSF1
Description
Bos taurus gametocyte specific factor 1 (GTSF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034273]
Coordinates
chr5:25736462-25738467:+
Coord C1 exon
chr5:25736462-25736562
Coord A exon
chr5:25736563-25738340
Coord C2 exon
chr5:25738341-25738467
Length
1778 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
CACTTTAATTTTTTTCCCAGAAT
3' ss Score
7.19
Exon sequences
Seq C1 exon
TCGATACTCTGGACCCTGAAAAGCTGTTACAATGCCCCTATGATAAAAACCACCAGATCAGGGCCTGCAGGTTTCCTTATCATCTTATCAAGTGCAGAAAG
Seq A exon
GTATGATATTATTTTCTCAATTTGCCCGGTGATGGCCTCCTGAATTCTTTTAAAAAACCAAGTTTTATAAATATCAAAGAATTTTAGCATATATGTTTTAATTAAATGCCAGAATTGCTTTGGGTTAAATGCCAACATTTATAGAAAAGAATTTCTTTATTTCTTGGGTATGTAAGTTTTTTCTCATTTTGGTTTTTCCCCCAACTAGTGACACAGCACCCTTAAACAGTTTCTCTCCGGTCTTCTCACCCTCTGTGAAACAGAGGAAACACTAATTTTTACTAGTGATAAGAAATCATTCTTGCCTTGTAAATTTGATGTACTTATTGTCCTGATAAGGATTGAGTACTGTAATACACTTATTTCTGATTTTTTTGTTTGTTTGTTTAGAATTGTTAGAGAAGTTGAACAGCTAGAGGTTAACCCAAGAAAAGATTATTCATAAAAATAACTATTTCTCCAAGTTTCAACAGTAAGCATCTTTAGGGGGAGGGGGGAAAAAAAAGCTCGAAGAGTTTTTTCCCTCTGGTCACCTTTTGTAGATTTAGTTGATATAAGCTAATTTAATGCTGATGTATTAATTGAGACAGTTTGAAAGGGTGGTTAGAATAGAAAGGTCAGATACAGAGGCCAGAGTTCTGCCAGGATTTATGCTTGGAAAACAATTTAGGTATTTAATCCAAACCTGCATACAGTTCACATATGCATTAATATTCTTCAAGGGATGTTTCTCTTGCAGTCCTGGAGACGTGATTATAATGCCATTGTTGATTATTTCTCAGCTCCTTTCAATGTCTAGAGCAAGAATTCCTTAAGGTTGAACCTAGACATTAGAGACCAGCAGATACCACCACAACTTCCTCCTGTAGGCTCTCAGACATGTCCCAAGGAGAAAGGTTGGGAAAGGGAGCCATCATCATAACTCCCCTCTCCTAATGCTCTTAATCTTCAGCCACAAAACCTTTGCATTAGAATGCCCACTGTCCCTTTAAAAAATCATGGAGATACCTGCCCTCACAATTTTCTCCATCTTCTATTTTTTTGCACCCTTCTCCCCACTTTACATTATTTTTACTTTTTTGAGTATCATTTGTGATATATCTTTTGCTTCTCCTAATTTCTTAATTGCTGGTAAACTTAACATAGCATTTGGGTTATATTAAACACTTTGTTTTGTTTTCTTGTTTTGTATTAAAATAAGGAACTTGGTCAACAGAGTTCTCTATCATCTGGACTTTTCCTTAGTGAAATAGCTGAAATAAAGGACAAATTGTTCAGAGCCTTATTTCAGGCATCGTTACTTTAAAGAAGTGTTCCTGTGTTAATCTGAAAAATCACTGGGTTTGCCTCTTCTGCAGCTCCCTTCCCACAGCTATTTTCCTGCACTCTTGTACTGCAGCAGCAGGGGCGCTACTGCAATGCAGACAAAGTGTGTTTTAGTGTTGCTGTTCGTCCTGAATATCAGCTTTCAAAGACATCCAGAGAGCTGTGCCTTACAGGCTGTGCCTTACAGGCTGTGCCACCGGACTCGTGTGACCCTGAGAAGTAAACAGGGAGAATATATGATTCAAATACCCAATCTTAAATTCACTGTTTACTTCCTTATAAACCATTTTAACCCCAATATCTGTGTTGTCAGTCTTTATAATCATAACAAAGAGGTAATGTCTCTGTGATCTGTATAGGTGATAAATAATTCTCTCTTAATGTTCTGCTGAGTGTACCTATCACAGTTCCACCACAAGTTTATTGAAAAACCACTTTAATTTTTTTCCCAG
Seq C2 exon
AATCATCCTGATGTCGCAAACAAACTGGCAACTTGTCCCTTCAATGCTCGCCATCAGGTTCCTCGGGCTGAAATCAGTCATCATATCTCAAGCTGTGATGACAAAAGCTGTATTGAGCAGGATGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018085:ENSBTAT00000047442:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF052537=zf-U11-48K=WD(100=79.4)
A:
NA
C2:
PF052537=zf-U11-48K=WD(100=62.8)
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:
CGATACTCTGGACCCTGAAAAGC
R:
TCCTGCTCAATACAGCTTTTGTCA
Band lengths:
222-2000
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]