GgaINT0011326 @ galGal4
Intron Retention
Gene
ENSGALG00000007447 | TUBB1
Description
Tubulin beta-6 chain [Source:UniProtKB/Swiss-Prot;Acc:P09207]
Coordinates
chr20:11232025-11235004:-
Coord C1 exon
chr20:11234894-11235004
Coord A exon
chr20:11234757-11234893
Coord C2 exon
chr20:11232025-11234756
Length
137 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TTCTGTATTTCTGTTTACAGGTA
3' ss Score
10.7
Exon sequences
Seq C1 exon
CCCATAAATATGTGCCCCGTTCTATCTTGGTGGACCTGGAGCCTGGTACAATGGACAGTGTACGATCTAGCAAAATAGGCCCACTGTTTCGACCTGACAATTTCATTCATG
Seq A exon
GTATGTACAGCATGCTGTTAGCAAACCAACCGAGCAAACCAACTAACGGTCCAAACTTGCCTTTACCTCTCTTTAAAAACAAAACAAAAACCCTACTCTTGTTAATGTGGTTGTTCTTTCTGTATTTCTGTTTACAG
Seq C2 exon
GTAATTCAGGTGCTGGAAACAACTGGGCTAAGGGCCATTACACAGAAGGAGCTGAGCTGATTGAAAATGTCATGGATGTGGTCAGGAACGAGTGTGAGAGCTGTGACTGCCTGCAGGGATTCCAGCTCATCCATTCGCTTGGTGGTGGTACAGGCTCAGGTATGGGCACACTCCTCATCAACAAAATCAGGGAAGAATATCCTGACAGAATTATGAACACTTTCAGCGTTGTTCCTTCACCCAAAGTATCTGATACAGTTGTAGAGCCCTATAATGCCATCCTCTCCATCCATCAGCTAATAGAGAATACAGATGAAACCTTTTGCATCGACAACGAAGCACTATATGATATATGTTTTAGAACTTTAAAGCTCACCAATCCCACCTATGGTGACCTCAATCACTTAGTGTCCCTAACAATGAGCGGCGTTACAACCTCACTCCGTTTTCCTGGTCAGCTGAATGCAGATCTGAGGAAGCTGGCTGTTAACATGGTGCCCTTTCCTCGCCTGCATTTCTTTATGCCAGGCTTTGCTCCGCTAACAGCGCGAGGTAGCCAGCAGTACAGAGCCCTCTCAGTGCCAGAGCTTACTCAACAGATGTTTGATGCACGCAACATGATGGCAGCCTGCGACCCCCGTCGTGGGCGTTATTTGACTGTGGCGTGCATCTTCAGAGGCCGGATGTCTACCAGAGAAGTGGATGAACAGTTGCTGTCTGTCCAGACCAAGAACAGCTCCTACTTTGTGGAGTGGATCCCTAACAATGTCAAAGTGGCTGTGTGTGACATACCACCGCGAGGACTGAAGATGGCAGCTACCTTTATTGGCAATAACACAGCCATTCAGGAGCTCTTCATCAGGGTTTCTGAACAGTTTTCAGCTATGTTCAGAAGAAAAGCGTTTCTCCATTGGTACACTGGTGAAGGCATGGATGAGATGGAGTTTTCCGAAGCAGAGGGAAACACCAATGACCTTGTTTCTGAGTATCAGCAGTACCAAGATGCCACTGCAGATGTTGAGGAATATGAAGAAGCGGAAGCTAGCCCAGAAAAAGAAACATAGAAACAATGGAGGTATAAAACATTCTCCAAGTAAGCCTGTTGTCATTCACTAAAGGAAAAACATTAGCCACAAGCTGCATACCAAAAATAACACCTTCCTTAAGATTATTTTCCTCTCCAAAATTACAGTACTGTGCTTTTGAAATTAACAGCAGGTATGGTCTACTTTCCTCTCTACACTAAATGACTCCCAGAAAGGATCCACTATGAAGACAGGTTCCCTCATAACCGTCTTCTAAATGTATTCCCTTCTGGAATACTATTGCTAGATGCTGCATGTAATATGCAGACTGTGTTCGTATTAGGGTCACAAGCAATAGCAAAAGATGTTATAAACTCATCAAATTTACTTATTTTCAGGTAACCAAAGTCCATGTTTTGTCTGTGAACTTGCTACTGTGTTGGGAACACACATTTGTAAGGCCTATAAAGGCAATATGTCGTCATGCACTCTAGAGATGGATCTAGAGCTGTCAACAATTTCAGTTCCTTTAGCAGCAGAACGAAGGGGAAAAACAAGACTAAATATTCTTTTTTTTTTTTTTTCTTTTAAGAGGTTCTATTTTAATAGTCCTGTCACATTGCTGGTTTGCATTATTGCAGAGCTTGTACTCATTTAGTGGTTTATTTCAATTTCAAACTATAGCTTCAGTTATACTAGCATACCAAATTGCAAACAGTGTTTAACAGTTTTGGTGTGGTGTTTTGGTTTTTGTTTCCCTCCTTCTATGTAGTAACTATTATAAATTTTCTTCCTATCACTCAGTACAGCAACAGATGGAATGGTTTGCAGCTAAATAAGAGATGTAAGTTCAAGGGCAATCACTAAATAAGAAAAATACCTTGAGGAAGAAAAATATGCCTTTCACAGCCATCTAATTAACATTGCATTTATAATATTCCTTGAAATAAAAATATATAGCATTCTGTAAAATACTTCAACACTTGAAAAATGTAGTAGGCAAAAATCATAGTTTGTAACGACTAACATGCACTTAAAAATTGCTACTTGAAAAAAAAAAAGCTTCTTTTACTCAGGAGAGATTCTGTTGTACTCTAACGAAAGCCACACCTCATGTTTTAGTCTTCTGTATTGTAGTCAGCAGTAGAAGCATCCAGGTAAACACATCTGAATCCAGCTATGGAAGTACATTATCTTCCTTCCTATGCACAGGGACAATATTATACTTGCTGCTGAGATACACAGCAGCAGAAACATCCATCTTCACTTGGTTAGGGGAAATGACTGTGTTCCCCTCCGTTCCCACTGCTTCCTAGTGAATCCATGCCTGCTCCCTCACAGGGAAAGTGACAAAGTGCTAACAGGGACAGTAATACAGTCCAGAGCCTTCTGCACTTCCCTTCCCACCCCATACAGGGAGCCACCTCCAACTCCTGATTCCACTGATCATGGTCCAGACAGTCTTGGAGATGGATCAAATGCAACACCTCCATGGAGAAGTATTCTACTTTGTTTTCCCTTAAACCTAAGTGACACCAAAATGCCTTTGGCTGAAAAAATTTATTCTGAGCACAAAAGCATTCATTATGGAAATGAAGCAGGCAAAAAAAGTTTTAAACAGCAGTTACATCTCTCTCTTATTTATAGACCTGAAATATCAGCATGAAAGCCAAGAAGAGATCTGTCTTGACAATAAACATCTGTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007447:ENSGALT00000012048:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.093
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=36.9),PF0395312=Tubulin_C=WD(100=34.6)
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:
GTGCCCCGTTCTATCTTGGTG
R:
ACCAAGCGAATGGATGAGCTG
Band lengths:
243-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]