GgaINT1028860 @ galGal4
Intron Retention
Gene
ENSGALG00000027242 | TTF1
Description
transcription termination factor, RNA polymerase I [Source:HGNC Symbol;Acc:HGNC:12397]
Coordinates
chr17:6522900-6523407:-
Coord C1 exon
chr17:6523179-6523407
Coord A exon
chr17:6522990-6523178
Coord C2 exon
chr17:6522900-6522989
Length
189 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CTTTTTTGTGTGTTTTAAAGGAC
3' ss Score
10.45
Exon sequences
Seq C1 exon
CAATTAATTATGGTCCTTGGTCAAAAGAAGAGATCCAAAGGTTGATGCGTGCAGTGGAGGAAGTGATTATAAAAAGAACAAAACTGGAAAATGCAAATTCTCTTTCCTCATCCAAAAAATCTCATAGAAGTCTCCAGATTGACCGTGAGAAACTTTTCCAGAAATTACCATGGACTGAGATTGAAACTAAAGTGGGCACTAGGTATTGGAGACAATGTAAGCAGAAATG
Seq A exon
GTAAGGCTTTATACTAAATTGAGATAGTGAAATCAACTCCTTGCCAGCTGTGCTAAGTTTTCTCATTGCTGTGACCTCCAGGCCTGATTGCTGCTGCTTTGTTGCTGCAGCAGTGGCATCTTGGGGTTGCTTCCTTTAGATACCTGAAATGTCATGAAATAATAGGAACCTTTTTTGTGTGTTTTAAAG
Seq C2 exon
GACTTCAATTTTAACCAACAAGATTACCAAAGGGCAGCAGTTACACAGGGGAACCAAAGGATTGCAAGCCAGCATCAACCTTATTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027242:ENSGALT00000046072:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PD(24.1=18.2),PF131691=Poxvirus_B22R_N=PU(78.4=75.3)
A:
NA
C2:
PF131691=Poxvirus_B22R_N=PD(20.3=48.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGGTTGATGCGTGCAGTG
R:
GGTTCCCCTGTGTAACTGCTG
Band lengths:
249-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]