GgaINT0044547 @ galGal4
Intron Retention
Gene
ENSGALG00000003526 | TUBGCP2
Description
gamma-tubulin complex component 2 [Source:RefSeq peptide;Acc:NP_001006496]
Coordinates
chr6:8895102-8897185:-
Coord C1 exon
chr6:8897026-8897185
Coord A exon
chr6:8895310-8897025
Coord C2 exon
chr6:8895102-8895309
Length
1716 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
TGTTGTCTCTTTGAAAACAGGTA
3' ss Score
7.46
Exon sequences
Seq C1 exon
CCTCTTGAGCTCACACGAAAAATGCTCCGAGATAAGCAAAACAAGAAGAATTCAGGTCAGCCTGTTCCAGTGTTTCCATCCTGGGTGTATGAGAGGCCTGCGCTTATTGGTGATTTCTTAATTGGCACTGCTCTAAGCACTGACATAACGGTACCTATAG
Seq A exon
GTATGTGATACACACTGAAAATTATGTTAACAAGATATAGAATCATAGAATCACAAAGGTTGGAAAAGACCCACGGGATCATCCAGTCCAACCATTCGCCCATCACCAATGCTTCTCACTAAACCATGTCCCTCAACGCAGTGTCCAAACGTTCCTTGAACACCTCCAGGGTCAGTGACTCCACTACCTCTCTGGGCAGCCCATTCCAGTGCCTTGTGTATATGTTTTGTACTTGTTCAGAAGTGCCATTTGGATTCCATCATAATTAGGATGAAAGCAAAGCTTGCCTCCTTGAAATCTGCGGAAAGAACAGGGTTAAAAAAAAAAACACAGCACCCAACCAGGCATATTTTCTTCGAAGTGTTTCTCCTGTGCTAAATTCCAACTCCACTGTTAATCCATACGATCTAATCTGCTTTGAGTTTCCCAGTCCTTCTTCCACAAAATACTACTGCAGGAGCATCCCATCTGCATTCTCAGCTGAAAAATCTGCAGTTGCACCTTTCGGGAGTATTCATCAGTCCATGCAGCTCATTCTCCTCTCCAGTAAGGCTGTGACAACCTCCCTGATGTGCTCCTAGCCAGAGCAATGAGGAACTGATCTCACTCTTTTGTATTATAGCTTTAGACAGAGCTGTGTATAGTTTGTGATTTGTAAATCAGATAAAAGAAAGGCAACGGTTGTGCCAGAGGTTCATGTTTCTGTTCCCCAAGAAGGCAAATGCACCTGCAGGAATCCTTTAGCTTCTTCCTGGCATGGATTTGTGCCTTGTCTAAGGGGCACGTGAAAGTAGTGATCACAAGTAGTTTCATTCTTGAGTGTTTCCCTGTTGTCAAATGGTTTGTGTAGCTGCATGGGAATTTTAAGCATGTCTGTTGCGTACATTTACAGTCCATGTTTATTTTCCAGGCTTTTGAACCACATGACAGAGATTCTCAGTCACATTTCAGTTAAATGCTTCTCCCCCTCTCCCCACCCCAGGGATTAACAAATTCTGTAGTGCCCAGAAATCACTGGTAAGATCAGACACCTCTCAACACTGTTGAATGCTGCACCAGCACATACAGTCCTACAATGGAGAGGGATTGTTAGCTGGTTTTGTGAGATAAGGCTAGCTGTAGTGAACACTGTAGCCATTCTGGTCCCTAAAAAATTTTGAAGTACTTCATTGTATTTCAGTTTGAGTCCCTTGCACTTCTTTGTAGCTGATTTCTAGTTCACTGCATCATTCAGAGACCCCATAGCTTACAGTTCACCTGCAGCTTTGCCTGGACTAGCTTTTCGTTTCTTTATTTGAATTTTATTCTTTGTATTTGAGTATTTCAGTGGAGGGGAAGTAGGAGAATTGTTGGCAAGACTGGGACTCAGGTCCAGTGTAACTGAGCCCATTTGGGTGGAAGAGTGAACAGTGCACATGATATTCTCTTGGCCACAGTTGATGGATGCGTATCTCTGTCTACTTGATTTGCTTTGAATTTAAATGATGAGCAAAGGCTTCTATTTTCCTGGACAGCAACGTTTAGGATTTTGGAGTTGACTGTAACTCAGTTTTATTTCTCTGTATCCTGGTTCAGCTTTGCATGATCTTTCTTTGTTCTCTTTGAATGGTAATATGTCATCCTTTTAGGCTTCAGGTGCTAGATCATGAATGGAAGGTCCGGACATACTGCAGCACGTTCTGGTTATGTTCTTTTCTGTTGTCTCTTTGAAAACAG
Seq C2 exon
GTACTCTGCCATTAGCATCCCAAGAATCCATGATTGTGGAGGACTTGCTGTATGTTTTGATTGGTGTGGATGGAAGATACATCACAGCACAGCCTCTTGTTGGCAGGCAGAACCGAGCGTTTTTAGTTGATCCAAACTTGGACTTGTCCATCAAAGAGCTGGTGACCAGGATTCTTCCCGTAGCAGCAAGTTACTCTGCTGTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003526:ENSGALT00000040987:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF041308=Spc97_Spc98=PU(10.6=78.6)
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:
GCTCACACGAAAAATGCTCCG
R:
CAGAGTAACTTGCTGCTACGGG
Band lengths:
350-2066
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]