BtaINT0069998 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018085 | GTSF1
Description
Bos taurus gametocyte specific factor 1 (GTSF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034273]
Coordinates
chr5:25738341-25738983:+
Coord C1 exon
chr5:25738341-25738467
Coord A exon
chr5:25738468-25738899
Coord C2 exon
chr5:25738900-25738983
Length
432 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
GAATCTCTGTTGTCTTGCAGTCA
3' ss Score
7.84
Exon sequences
Seq C1 exon
AATCATCCTGATGTCGCAAACAAACTGGCAACTTGTCCCTTCAATGCTCGCCATCAGGTTCCTCGGGCTGAAATCAGTCATCATATCTCAAGCTGTGATGACAAAAGCTGTATTGAGCAGGATGTAG
Seq A exon
GTAAGACTGACTAGCTAAGATGTTTCAGTACTGGAGGTTAGCTCCGTCAAATTTATATGATGCTACATTGTCACCTTGATTTTTGGCTTTCATCATTTCAGAAAAACAATACCTTTCTGCCTTTGAGATTTTTAATCTTAGCAGCAAAAGATTGTCAGGTGCCAGACTTCTTTTTCTTCTGAACAACCTGATTGATTTTACTAATAATTCGTTTAAAAATAAAAATTCTTTTATTACCGTAAATACAGCAAACATCTTTGTTTCTGCTTCTCTTTCTTGTCTTCTGTCGGAAAGGAGATAAGACCTGTTTAGCTTTCATCCTGTCCATTTTTCAGAAACAAAGACCCTGCAACCTTTTAAGCCACTAACTCCTTTAAATATAATAACTTGGCAGTGTCCCCTTCTTAAGTCAGAATCTCTGTTGTCTTGCAG
Seq C2 exon
TCAACCAAACCAGGAGCCTTGGACAAGAGACTATGGCTGAGAGCACGTGGCGGTGCCCTCCTTGCGATGAAGACTGGGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018085:ENSBTAT00000047442:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.138
Domain overlap (PFAM):
C1:
PF052537=zf-U11-48K=WD(100=62.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCATCCTGATGTCGCAAACA
R:
GTCCCAGTCTTCATCGCAAGG
Band lengths:
206-638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]