GgaINT0040083 @ galGal3
Intron Retention
Gene
ENSGALG00000006538 | TBC1D12
Description
NA
Coordinates
chr6:21166672-21167952:+
Coord C1 exon
chr6:21166672-21166930
Coord A exon
chr6:21166931-21167835
Coord C2 exon
chr6:21167836-21167952
Length
905 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TATTAAATCTGTGTTTCCAGGTG
3' ss Score
9.43
Exon sequences
Seq C1 exon
GATTTTTACACTCTACAGCAAGTCATTGCCACTTGATCTGGCCTGTCGTGTCTGGGATGTTTTCTGTAGAGATGGGGAAGAATTTTTGTTTAGGACAGGGTTAGGAATCCTTCGGTTATATGAAGATATTCTCCTACAGATGGACTTTATTCATATAGCACAGTTTCTAACAAAACTTCCAGAAGATATTACATCAGAGAAACTTTTTAGTTGTATTGCAGCTATTCAGATGCAGAATAGTAACAAAAAATGGGCACAG
Seq A exon
GTGAGTTGGATGTATATACATATGAAAACATGCTCATGTCTGCACATACATACATGGGGCACTTCTTTTAGTAACTATGCTACACGCATGACTTCTAAGCAATAGGTAATACTGTTCAAGTGACATTTTGTTTTTAGACTTGTCGCTGATGGGAGATGCATCTTGGTTGTGTATTCAAAGAGAATCTCAATTCTTGTCATTGAGATGGCTACTTTTTTCCCTCCTCTTGGAATACAAATTCAGCACTGCATATTAATTTGGGGAGCAATAAAGTAGTTGTTAAATAACCCTAGTTTTTAGTACAAAATGCTATGCTGTAAGAAGATGAACATGTAAACCAAATTCTATTTGAAACTGACTCAATATAGTCTAAAGGGAATTGTAATAAGACCGAACTGAATAAAAAGGGAAGAAGAAAATCTCTTCAGACAGCTTTGTGGTGGGGCCTTTAAAATAATTCTTCACCTTCTGTTCCCTGTATGGGAATTCCTCCTAGTTCTGATGGAAAATACCAGTGTGACAAATAATTGGAGTTGCTGCTGCTGAAACCTTCAGCTAAGTACAAGGGTGAAGTAGTCAGGTTTGGCAGAAAAAGTGGCTTGTGTTCTTGGCTCAACTCCTAATGCCAACTGAGATGTAAGGAATAGCTGGAACATAAAAGAGGAGTTGGGAATTGTTTACCTTGTTGTATCTTCCCATATCCATGAGATTGGCTTTTCCCAATCATTTTAATGAGTTTTTCCTAAGATGGTGGAAAAAACCTTTTAGATTTTGTAAGCATTTAGAAGTAATTGACTCTTCCTTTCTGGGGTCTCATTTTAGAAAGATATTTCCACGCTAATATCATTGTGGTTAACTTTTTTGTAGGACTAACTTTTCTATATTTATTAAATCTGTGTTTCCAG
Seq C2 exon
GTGTTTGCCTCACTTATGAAGGACAACAAAGAAGGGGACAAGAACCATAGCCCAGCACTGAAAAGCTAATCATTGTAATGTTGAGGTCAATTGAAAATGTGGAAAACCACTTGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006538:ENSGALT00000010562:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.318
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=PD(19.7=51.7)
A:
NA
C2:
NO
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:
AGTCATTGCCACTTGATCTGG
R:
TCCACATTTTCAATTGACCTCAACA
Band lengths:
342-1247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]