BtaINT0066337 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016723 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr3:51107295-51108619:+
Coord C1 exon
chr3:51107295-51107432
Coord A exon
chr3:51107433-51108453
Coord C2 exon
chr3:51108454-51108619
Length
1021 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
AATGCCACGTCTTTCTGCAGGAA
3' ss Score
8.58
Exon sequences
Seq C1 exon
GTGTTCTCCACACCGCACGGGCTCGAGGTGCACGTGCGCAGGTCCCACAGCGGCACAAGACCCTTTGCGTGCGAGATTTGCGGCAAGACCTTCGGGCACGCGGTGAGCCTGGAGCAGCACAAAGCCGTGCACTCGCAG
Seq A exon
GTAAGCGCGGGGCGAACGGCCGCGCGCCGCCCTGCTCAGGTTTTCGCGTTCGGGGATCTCCTGTGCGACACCGGATGCTCTCCGCCTGGCAGCTTTCGCCTTGGACTTACCCCGACTGCCCCCAGTCCCCTCTGCCACGTCCCCTGGCTCAGACGTAGGCGTGGAGAGAGAGGTCGGGCGTTGCCGGCCTCGAGGCAGCCCTGGAGTTCGGTGTCACATTGTTTGTGAGACTCAGGAAAGTGATCTTGATCATTACTTTGGGTCTGAGGAAGGCTTGTATGCACTCCTGCGGGTGATATGTCAAATTTGTTAGCTCTGTTTCTTGGCCTCTTTCTTTTCACCAAATGGCTGATACTTAACCTGCCTTGACCTCTGCGGGTTGAAAAGGAGGAATCTCAGCTCATTTAGAGCCTCCAGTGTTTGTCCCGCTATTCTTTCATTTATTCATTTGTAAATATTTGTTGCTCAACTTCAGGTACTAGGTCCTTGAGAATCCAATAACACACCAGCTTCCTGACAGGATACCCTCACAGAGATTATGCTTTAGCTGAGAGGGTAGATAACCAAATAAGAACACAAGTAACGATGGCAGCAGAATGCTTATTTACAAACTCATTTGCTCAAAAGTATTCTGTCTCCTTCAACACCCACACTGGGTGGGGATGGGATGGGGGAGGAGCATCTCAAGAGATTGAGGTCTAAGCCTCCTGTTGAGGAGGGTGGAGAAGTGTTTGTAAATGGGTGTCAAAAAAGCAGGGTGGGGATACAGTTTTGCCAAGGGGTGTGGAAGGTTGTGGCTGAAAAGTGTTTGGGTCGAAAAAATGTTAAAGGGGTAGAGGATAAGAGCGGGAAGGGTGGAGGCTGGAAATAAACTGGGAGGAGAGAGGATAATGGAGCACCCTGTGTGGATGGAGAGTCTGAAGGAGGGGACAGTCCTGGTTTGGGGGATTTCAGGGTCAGTTGGTGGTGAGGAGAATGGCAGCCTAGACGATTGCAATAGGAATGCCACGTCTTTCTGCAG
Seq C2 exon
GAACGGAGCTTTGACTGTAAGATCTGTGGCAAGAGCTTCAAGAGGTCATCTACGCTGTCCACACATCTGCTCATCCACTCAGACACCCGGCCCTACCCCTGTCAGTACTGCGGCAAGAGGTTCCATCAGAAGTCAGACATGAAGAAACACACCTTCATCCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016723:ENSBTAT00000022231:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=58.7)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=41.1),PF134651=zf-H2C2_2=PU(38.5=17.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTCCACACCGCACGG
R:
CAGTGTGGATGAAGGTGTGTT
Band lengths:
302-1323
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]