GgaINT0126190 @ galGal4
Intron Retention
Gene
ENSGALG00000004920 | TRUB2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:HGNC Symbol;Acc:HGNC:17170]
Coordinates
chr17:4989520-4991504:+
Coord C1 exon
chr17:4989520-4989656
Coord A exon
chr17:4989657-4990339
Coord C2 exon
chr17:4990340-4991504
Length
683 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGG
5' ss Score
6.53
3' ss Seq
GAATCTCTCTGACCTTTCAGAAA
3' ss Score
8.01
Exon sequences
Seq C1 exon
GCATTCTCACATCGATATGAAAACACAGGAGGCCTACGAGCTGGCTGTGAAGGGGTTGATTCGTCCCATGGGAAAAAGCCCCCCAATCATCACTGCAATCCGGTGTCTGCAGTTTGCACTCCCTGAATTCCAGCTAG
Seq A exon
GTAGGGCTGCTGCAAGGCTGGGGTATATATAAGTTGGTAGAATTCACTTTCTTGTTAGTGACCTAATGCACAGTGAATTGGTGGGAGCTCAGTACCAACCAGCAATGCCTGCAGTGCTGTGAGTTGTAGCCTGCCAGCTCAGCACAGCATCCCTCTGCTGGATTATCTCCGTTGTGCAAAGCTTCTTTTCCCCCCTTTTTCTGAGAGCAATTGTCTGAAACCCTGTAGAACTGAAGATGCTGTACTAAACCAAACCAGCTGCACACCTCCCTCATTTTGCTTTCCTTTTTCTTCCTTATGCCAGTATTTAAATGCAGTGCAGCTCAGTGGGCACGGGAGGGTGTTTAAGCATGCCTTGCTTTTCTGCAGTCTTCTATTGCTCCCAAATCATTCGTCTTACCGCAAAGGTGGTAAGGTAAATCTTCTTATCCACTTTAAAATAGCTAAATCTCTCTATAATTCTGCTACATACACAGATTTGTTCTCTAAAGCTTTAGTTTCTGGAGGGGCTGGGACAGCCTGCAGCGTTCCAGCAATGCACAGTCCACCTGTGCTTTATCACAGCAGTCTATTCTGCTGAACTGTTACCTTCAGCATAAGTGTGATGGACGTCTGCATTACAGACGAGGTCTGAGCCGTCCCATTGCTTTGCCCACTCTAAAGGAATCTCTCTGACCTTTCAG
Seq C2 exon
AAATCCACTGCTTGCATGAGACCCAGCAGTACCTCCGGAAGGTAGTCCACGAGATTGGTCTGGAGCTGAAATCATCTGCTGTGTGCACACAGGTGCGAAGAACACGTGATGGTGTCTTCACGTTGGATGATGCTCTCCTGAGAACGCAGTGGAACCTGCAGAGCATACGGAGTGCAATTTTGGACTGTCAGCTCAGAGTGAAAACTGAGTTAGAGAAAACAATGGGCCATTGGGATGGAAGTGTTCTTCAGGAGATGGATGCTGAGACGGCCCACACCGCTGACAGCTGAGCGTGTGCTCCAGAGGGAACATCCACAGCCCATCTCTGCAGCACAATAACATCGCTACGTGCTGACAGAATGATGGACAACAGAAGGAAAGAGGTTAATTGCAGTTCACTTCCACCACTTCTTCGAGATGACTTTAATCAGAGAGGCATTTTTTCATTGACAGGCTGTATAATTCTTTGTTTTAAAGCATTGTAAACAGTTCGTTAACAGGAGGTAGCCGTGCCAAAATCCCTGTTGGCTTTGGGATCATTAGGTTGCTATGGGATATTGAAACCCCTTCCCAAATTGTTCAGCAGCAGGAAACACAGGCAGCATCTTCCAGAGCTGTGTTCCCTTGATTGCATGGATCTCTTTGCTCCTCGCAACCAGCAGCACATCTCCCCTGCTGCACAGGTTTTTATTTTCCCCAAGAGTAGTGCATTTGCTTTAGTCCTGCTTTCAGAGCCAGAAATGAGACTAAAAGAGGGCTGCAAGGGAGGAAAGGCAGCTTACCTGAAGTCCTGCAGGGAAATGGCTGTCAGACAGAGCGTGTGCAGTGGGGAAAGAGGGACTGACACAAAGATGCTAACAGCACAAGGAATAAAACTGAAAGTGACCTGAAGGGGAAGAGGCTGTTTTTGGGTTCAGCACTACAGACAAATACACGGATCTGTTAATTAAGAAAGAAAAAGCTCTGTCTGTTTTTGCTGAGGAACCAGGGCTGCTCAGGGCTGTGCTGTGCTGTCCTTTGGCAGCTGCCTGCAGGCAGAGGTACTGCCTCGCCGTGGAGGTTTCAGTTCTGTAATCCCACTTGTTACCTATTAGATCATTGTAGGTGGATTAGACTTAACAGAAATAAGCTTTCTAAATGTAAATTAAAAATGGTGCTGTTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004920:ENSGALT00000007872:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF0150913=TruB_N=FE(30.7=100)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=9.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCACTCCCTGAATTCCAGC
R:
GAGATGGGCTGTGGATGTTCC
Band lengths:
350-1033
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]