GgaINT1028863 @ galGal4
Intron Retention
Gene
ENSGALG00000027242 | TTF1
Description
transcription termination factor, RNA polymerase I [Source:HGNC Symbol;Acc:HGNC:12397]
Coordinates
chr17:6520528-6522148:-
Coord C1 exon
chr17:6522063-6522148
Coord A exon
chr17:6521613-6522062
Coord C2 exon
chr17:6520528-6521612
Length
450 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
3' ss Seq
TCCCTTTTCTTTTTTCAAAGAAA
3' ss Score
7.45
Exon sequences
Seq C1 exon
AGACGTTCCTGGAAGCTACGTTCAAGCAAAATTCTACAAGCTAAAAGTCACCTATGTTCCTTTTTGGCGAGCTAAGACTTTTTCTG
Seq A exon
GTTAGTATCCCAGCTGTTTTCATATTCTCCCTAAGCTTTTTGTTCCAATCTAAGAGGTTACATCTTCTACTTCACTGCGTGCTTTCTTAGTTTTTCTCCCTTAAGCAATTTGGCTAATACCACAGGCTTTATACTTATTTTACTAAATGTTTTTGTTTGTTGTTTTTTCCTTTTTACTGTATTGCAACAGTTTCCTTGTAATTGCATCTTCACACAGTGCTCATCAACCCCTTCTGTTTAGTACCTCAATTGTAACAAGTTTTGACTGTGCTTTTTTGGTTTATGTTTCAACGTATGCCTGATCTACGCTGCAGTCATTATAATCACTATGGAATAGTAAGATACTTGCATTTAACACTGACAAAGCAATTTCTGCCTGTGAGATCCTTTCTCCTTAAGGGATCCAGTTCTGAACAGACTCAGTTAAGACTCCCTTTTCTTTTTTCAAAG
Seq C2 exon
AAATCATTGTTCATCTTTTTGAAGAGACGCTGCCAGAACTTGAACAAAAGTTGGAAAAGAGGAAAAGGAAGCAGTCTAACTCTAGTGATGCAACAGTCAATCCAAAGAAGCAGGTTTTCCAACTCAGTGATGTTTTTGACTCCAGTGAGGAGAGTGATGACTGACTGCCTTAAAAACAATGGTAACTGCATATTTAACTGCCAAAGGGATCTGCTGGAAAGGGAGTGCAGCTCAACAACTGCAGGTACACGGGCTATGAAATAATGGAAAAGCAAGAATATAGGCATATCTGCTTTTCTTGTTTTATACTGAAGACTGATTGAAGATACAGGCGTTTTCACGCCACCTTTTGTTACCATAATTTAGCTTTGTTTTAGAAGTCCTTTTCTAATTGCAACCAAATTTCTTTCTGAAAGTCTCAAAAATAGATATTTTTTTCCACTGCTTTCTTTTCTGTGGAGTTAGAAACTTCGGTGTGATCTTAACTCTGAAATATAAACACATCTTCAGGCATCTGTGATGATGGAAACAGCACAACTGTGTGACGTCTTATGCTTTAAAGCAACTCATTTTATTCTCGTTGTAGATTTAAGCTCTTTAAGAGAAACGAGATTTTTCTCCATTGTGATCATAAATTGTATCATCATTTCGTGTAAATCAGAATGAAACGTTTAAAATGTTTTTATTAATATCTGGAATATAGAGAGAAAACGGACTGTGTATATGTATATACATAGGTATATATATGCACATAAATATTTTTTTATTGTGCCAAGGCGAGTTTTTACGTTTTGATATGAAAATAGAAGGATAAGGTGGAGGTTGCACCTCCTGTCTTTGTATGATCTCTTAATAATTTGCCTAAAAGTTATTTGTAAACTGACTCAGTGAATGTAATATAATTTTACTGTGTGTATAAAGCATTTGTATGGCCTGTTTATATTTCATATATGCTGTGTTAGAAACATACACAAATTGGTTCTGACATTATGTTCTGTGTTGCTCATTTTGATAAGTGAGAATTTAATTGTCAACGAAAATGCAAAAGTTTTAAAAGCTTTTGAAGTAAAGGCCTTGTGTGAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027242:ENSGALT00000046072:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.296
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACGTTCCTGGAAGCTACGT
R:
TTCATAGCCCGTGTACCTGCA
Band lengths:
346-796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]