GgaINT0069293 @ galGal3
Intron Retention
Gene
ENSGALG00000015546 | TBC1D14
Description
NA
Coordinates
chr4:82877768-82879408:+
Coord C1 exon
chr4:82877768-82877885
Coord A exon
chr4:82877886-82879301
Coord C2 exon
chr4:82879302-82879408
Length
1416 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGA
5' ss Score
3.54
3' ss Seq
ATGCATTCTGTTTCGAACAGGTG
3' ss Score
8.06
Exon sequences
Seq C1 exon
AGCTTAAAGAAGCCCAGAAGAGAAAGAAGCAACTGGAGGAACGTTGTAAGCTGGAAGATAGCATTGGCAATGCTGTTTTAACTTGGAACAATGAAATCTTGCCCAATTGGGAAACTAT
Seq A exon
GTAAGACAGTATGTTACAATGAGTTTTAATTAAAACTCTTCTGTATCCTGAAGAGAAGTTACAAAGTTAGCAAGTATAATTTTAAATGGTGTTGGTAACTTTTCTTTGAAAGTCCTCTTCACACAGTGACAAAAACAGTGAGTAATGTAAGCTTTATTAATTTGATGAGGTAATCAAAAGTAATGCAGTTCTGATTCTCATTGCTTCTCTTCAGTGGGGACTGTCGATATTTGGAAACTGTAAAAGAGTGAGAAGTGATCCATGAAAGAAAATGCAAAAGCAGAACGCATAATGCTTAAATGCATTTATCAAAAATGAGCTTTTCTTGACTACTTCTTGAGCTTGATGTTTCAGTATCAAACATGGAGTGAAGTATGTGCATGGTACTATTAAGCCTCTTTAATTAGTGGTAGACCTGCAGAGATAATCAGGTGATGGAAAAGAAAAGTAGGGAAAAGGTTGTTTTAAAAAAGCTGAAATACTACAAGATTTTCTACAAAGACACAGCACATACCCTTGGTAAGATACCTTCACTCTCCAGTTTTTCATGGACTTTGTTAGTCATCTTAACAACAACAAAAAAACAGCCCCTCCCAATCTGGAGAGCATAAAAGCAATACAACTATAACAGAAGCCACTACAGCTCTTATAAATGCAGCTTTCTTAATGATATTCAGTTGCTCTGCTAGACATATTGATGTGATATGCTGGAAAATGCACCTCAATTAGAGAACCAAGTGTGAAATAAAACATAACCAAACTGTAGATTAGATGTCTGTCTTCAGCAGTTGAAGATGCCAGAAGTTCCTCAGTGTGTTCCATATTTTACATTTAATTGAGAATCTGCTTTTAGGACACTGGATTGCTGGGTTTTTTTGTCACTCCTGGAAGCTGTAGCAATTTCTGTGTTCTGTTAAAATGTCTTTCTACCTGAAAATTGCTACTTCATGCTGGAGAGCTGGAGTGGCAAAGCTGGGTGGGTAACTGCGTGTCTCATTTGCACAAGAAAGCAATGACGAAGAGAACAGATCTATAACTTGTTTATGTATTTAATTTTACATGGAGGTTTAAGCCTGTCCAGACTTAGCATATGCAATGGCATGGATACAGATCTATTTTTCACTTCTTTATTCCTGTTCCTTACAACTCTTGCTGGTCATCTATGATGGAATATTACAGTTACTGTGACTGAACTGCTTCTGTCAAAATAAACCATTAACTTCAGAAGGAAGGAAGCTTTCCTTTTGCAGTTCAAGACAAAGTAGTACTAAAGAATTGATATGTACCAGTCTTGTTTGACTTCTTGACTCACTGATGTTCATTCTGGTCTGTATCCCTTTAAGCTATGATAAGAAGACACATTTACAGTTCAACTGTCAATGAAATCTTTCTTAGAATGCATTCTGTTTCGAACAG
Seq C2 exon
GTGTTGTTCCCGTAAAGTTCGAGAGTTATGGTGGCAGGGCATTCCACCGAGCGTGAGAGGCAAAGTCTGGAGCTTGGCAATTGGCAACGAGTTAAACATCACCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015546:ENSGALT00000025058:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF085986=Sds3=PD(35.4=85.0)
A:
NA
C2:
PF0056613=RabGAP-TBC=PU(8.8=54.1)
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:
TTAAAGAAGCCCAGAAGAGAAAGA
R:
CATGGGTGATGTTTAACTCGTTGC
Band lengths:
222-1638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]