GgaINT0040082 @ galGal3
Intron Retention
Gene
ENSGALG00000006538 | TBC1D12
Description
NA
Coordinates
chr6:21164989-21166930:+
Coord C1 exon
chr6:21164989-21165098
Coord A exon
chr6:21165099-21166671
Coord C2 exon
chr6:21166672-21166930
Length
1573 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GCCTTTTTTCTCAATTGCAGGAT
3' ss Score
12.56
Exon sequences
Seq C1 exon
ATGCTGAAATACTTTGCAGCCTTTGAAGTATTCTTTGAAGAAAATCTTCCCAAATTGTTTCTTCATTTCAAATCATACAGTCTCACTCCAGACATATATTTGATAGACTG
Seq A exon
GTGAGTTCAGAGAACAGAGCAAACCTAATGTTAAAGTGCTGGAACACTTTATATTTTGCTATAGTTTGGGCTTTTATTCACCTGTTGGATGTGAGTCACTTACGCATAACGTAAGTAGGGGAGAGGAGGCTACTGCATTGTATTTGTTTATGACTGATTGTAAGTGACTTGATAAAATGAACAAAATCATCTGCTGAAGAAAGTACGAGAATAGGAATATATTCTTGAAAGTAAAGGGTGGGTGAAATATGGCATGTAGTACAGGAAAGGGTAAACTTGGGAAAACAACAAGCATTTTGAAGTAATGAATATTCGGAAGTACTGAACTATTTTGTCAGTAATAGAAGCCAATAGTGCAGGTATCTTTCAAGTGTGTGTAGTGCTGCCAAATATTGAATGTCTCTTCCAAAGTTCTGTAAAGTGTCTGTTCATATATCATTATTATGTGGCTTAGAATTTTCTAATAGCGTTAATTGAATTAGATAGAATTAAATAATACAAAAGCGGCATGTCATCCAAGTACTTGGGAACGAAGAACTTCTGCTGTCATCTGCTGTAGGATGCAGCTTTGCAGTATGTGGGAAGTCTTAGCAGGAGCTCAGATTATACAATAACAGCACTGAGATAGGAGTGTTGTGCAGCTCAGAGTTTATACAGATGTGTTATGCAAGTAGTGATGCTGTACTAAGTCCTAGAATACTCCGCTTCAGATAATTTGTGAGACATGAAGACTCTTATTCCTGCATGTGTTTCAAAGATGGCCTTGAGACATTAAGAGCCCCTCTTATGAATGGAGAGTAGGAGCAGTTGTGATAACTGTTGGTAAGGAGTGTTCCATGATTCCTGAGCCACTTTCCACTATAAATAATGGCAAAACAGAATACTGTGCTTTATATCAAAGGAAGCACTACAAATTTGAGTGAGGTTTTACAATATGCTGCCTAGAGCAGACTGGATTTTCTGCCTGTGTATTATGTATGCTTTCTTAGAATAGACTTCTTAATATCAAACACAATTGGACTTGGTCTTTGAATAGTAAAACACTGACCAGATTTTTGTGATTTTTAACATGATTATAAATTCGAAATATATTGCACTGAAAATTCAATAACTATATTTGTAGTAGGGGGATGTAGCATTCTACTGAGGTATTTACAGCTTTAAATTTAGTTTAAAATCAATGATGAACAGAGCTGTTAGACTGCATTGTTTAAATAATGGGAAGGGTTAAGTTCTATGCTTTTGAGCTTTGTAGCTTAAGTTCAAATTTGTATACGACATCCGTTTGAGTGTAAAGATGTTTGTAACTTCTCTAGCTATAGCTTCCTAAAGGAGGTGGCTTTCAAATAGAGGATTTCCTGTAGCATGGAAAGAGATTGGTTTCAGAATAGCAGTTCTGAATTGAAAACATTGTAACTTTTGTGTATGTGAAATACAGACAAATAGGAATGCTTGAAAGTAAGTATCTGCTCTCTTAGCTAATTTCACTGAGATTTAAAGGAGGTTGTTTAATGTTTCTTTAATGTTTCTGAAATAGCTTAAGTTATAACTCTGCCTTTTTTCTCAATTGCAG
Seq C2 exon
GATTTTTACACTCTACAGCAAGTCATTGCCACTTGATCTGGCCTGTCGTGTCTGGGATGTTTTCTGTAGAGATGGGGAAGAATTTTTGTTTAGGACAGGGTTAGGAATCCTTCGGTTATATGAAGATATTCTCCTACAGATGGACTTTATTCATATAGCACAGTTTCTAACAAAACTTCCAGAAGATATTACATCAGAGAAACTTTTTAGTTGTATTGCAGCTATTCAGATGCAGAATAGTAACAAAAAATGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006538:ENSGALT00000010562:9
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:
PF0056613=RabGAP-TBC=FE(15.8=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=PD(19.7=51.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGAAATACTTTGCAGCCT
R:
ACTATTCTGCATCTGAATAGCTGC
Band lengths:
350-1923
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]