GgaINT1028857 @ galGal4
Intron Retention
Gene
ENSGALG00000027242 | TTF1
Description
transcription termination factor, RNA polymerase I [Source:HGNC Symbol;Acc:HGNC:12397]
Coordinates
chr17:6524227-6525899:-
Coord C1 exon
chr17:6525714-6525899
Coord A exon
chr17:6524306-6525713
Coord C2 exon
chr17:6524227-6524305
Length
1408 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
TTGTATCGTTTACCTTCCAGCTG
3' ss Score
8.56
Exon sequences
Seq C1 exon
GTATTGCTATCAAGTTTGGCAGATTTTCCCAGAAGGAAAATAATCAAATCAGGAAAAATGTTGAAGATTTCTTATCAATTACTGGGATAGACAGTGCTGAAAAGCTCCTGTTTACTTCGAGGTATCCAGAAGAGAAAGGAGCTATCAATCGCCTAAAAGCAGAGCATCTTTTTTGTGAAAAACTTG
Seq A exon
GTAAGCATTAAAGCTCTGTCTCTTAGATTTCAGTGTTGCATTCCACAAACGGGGGATATCTCTTTTTTTCTTTTCTTTTTAGTAGATTATTATTGAAAAGCAGTAAAGTTGGTAGATTTGGCAAAAAAAAGGAACATGTTGCTGAGGTTTTCTAGTTGATAATTGCACAGTGTACTGTTCTTATTATTTGTTCTAGGTCAGGAAGAAGTTAGAAAGGAAAATTATATCATGACCAGCAGCACATACAGACTTCCATTTGGGTTTTGTGGCTTAAGGTACATTATTTGCTAGGCTGTAACCAAGTTTAGTGATTTATCAATGGGAAGGAATGATTAAATCCTGTCTGAAATGTTCAACATCCAGCGATGTCACAAACAGGAAGAAATAAAGTCATTAGCAGGGTAGTTAGTATTCCAAAGTGTGAGGAAAGCAAATAAAATTCCAACTAATGAGATTCTGTTTGCAAGAGGCACAATTCCTTCTTCCTCACTTTAATTGTTAGACTTCTCATGGCTAGGAAACTTTCCTGCTTTGTATAGCGAATATATTCATTTTGCAGTGTCCCTGGTGAAGCTGCTCAGAGCCCTTTCTCAGGGGCTCACCATGCTGCGTTCTGTGTCATTAGCACAGGCAACACAGAGTAAACAGTAACCTTGGGATTGGATACTTTGGTTCTTCTTGACGATTTCACGAACTCAGTTGTTCCACCTGTGTTGTCACACTGGCATGGTGCTGACTTCTCATTTGAGACACCAGTCCTGCTCTGGGAACGTCTGACAGAAAGTGATATTGGTGTTATGCCAACTGCTGTTAGCAGTCTTGGCCAAGGTTGTTAGGTGTTTCTAGGTGTGTTTATCTCTGTGGACCTTTCTCCACTTCAGGGATCTTTCCTTCAGCCAGGATCTTCACTTTGTTTTTGCTGAATGCCTCCATTCCCTGATTTTCAGAGTCGAAATGGCCAGCATGCAAAAGTGCTTGGACTCTTGATGGGTGGCTGCCTCATGCTTTTTTATTAGTAGAACAATTCAATAAGCTACTTGCATATGATCAACACATTATAAATATTTACACCCAGTCCATCCAAACTGGATACTTTAGAGAAGCAGATTTAGCTTTAGAGTAGCAGATTTGTGCTTCAGAGTTCAAAGGTTCAGTTTTGGATATTCACCTACACACTCACAGAACTACGTACCAGCTGTCAGCGTGTGTAATCTTACCATGGCTGTAACAATTACATCTTTGGAACTCTTCTGGAGATTCTATCCACACTATTTCCTGTGCAGTTTCTGAAGTGTTGTAGGGTACTATTTCTTGGATGGAGAGAATCTATGATTAAAAGCAGAGCCATAAAAATACTTCTTTTACCAGTGTAAAAATGTTTCTTAAAATTGTATCGTTTACCTTCCAG
Seq C2 exon
CTGAGGGCATACCACGAGCCTGGAGACTTATATATTACCGAGCAAGGAAGATATTTGACCCAAATAATTACAAAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027242:ENSGALT00000046072:3
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=0.000
Domain overlap (PFAM):
C1:
PF088896=WbqC=PD(44.1=47.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCTATCAAGTTTGGCAGATTTTCC
R:
CTCCCTTTGTAATTATTTGGGTCAA
Band lengths:
262-1670
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]