GgaINT0048251 @ galGal4
Intron Retention
Gene
ENSGALG00000010956 | TTC21B
Description
tetratricopeptide repeat domain 21B [Source:HGNC Symbol;Acc:HGNC:25660]
Coordinates
chr7:19175187-19176869:+
Coord C1 exon
chr7:19175187-19175375
Coord A exon
chr7:19175376-19176758
Coord C2 exon
chr7:19176759-19176869
Length
1383 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TTAAATATTTTACTACACAGGCA
3' ss Score
6.78
Exon sequences
Seq C1 exon
GCTCGGGAATTACAAGCCAGAGTACTTAAACGGGCTCAGACAGAGCAGCCAGATGCAGTTCCTGCACAGAAACAGTTAGCAGCTGAAATTTGTGCTGAGATTGCAAAGCATTGTACAGTTCAGCGAAACTATGAAAAAGCAATTAAATTTTACAAAGAAGCACTTGTTCACTGTGAAACTGATAAAAAG
Seq A exon
GTCAGTTCTCCCTCTGACAATTTTGTATTTGTTTTCCTCTTCCCTGTTGATACTCAGCAGTGCATTTTTCCAGTTATCCACAGCACAGTACTGTATTTGCAATTATTTCTGTTTTATGATGAAAACCACAAAGGTTTACATATTTGGTTTTTTTCTGCCTTGTACTTTCTCCTTTTTGTCACTCAAAATAGTTGTATATATACTGTCAATTTCGGTCTATTTACATAAAATACTCATTTGAGTGCTGATCTGTGTTCACTGAGTGGTCCATTAGCTGCCTGTATGATAGGACTGTCATCAGACAACAGTTGAGGATGCGTAAAGAATGTTACAGTAGTCATGGAGGCTGCTCCAGCCTTGCTTGTTGCCTCTCATCCGGAAAGAGATCCCAGTGACTTCAGTCAGTTCAGACAACTTCTGTCTCTGCTGTCTGTGTTCCAATAGTTCTGTCCCTACTTGGTAAGGTTCTGGTTTTATTCAAAAAATGTTGCTATTGCTGAGCAGTGATTATTGTACTGCTTCTCTTTTCCCTTCCCTGTCTCTTTCAGATTTTTGCATTAATGTTCCTCTCTAGCTACATGGAATGCAATGACGTCTTAGCAAATCTCAGACCAAATTTCTGATCTTTAAAAACGTGTTTCTTGCTTGCAGTACTGCAGTAGATGTCCAGTATAACTCCTTCATTGGCGTGCCCCAAGCTGGAAGTTTCCTAGCTAGCACGCTGCTTCACAGTCTTCCACTGTTGTACATATGAAAGCTTTCTTCAAATCACTGTTCTTGTAATTCTCACATGTGTTAACTCTGTATCTGTTCCATTGCTTGCTCACTTGCCTTTTTGTTTCAGAATTAGAGTGATTGAGCCCTGAGGATGCATGCTAATGTAAATATTGGTTTGTTAATATTTGTTCTGTGGCTGTTTCTCATAAATGAATTCATACACACTCTTAATATGTTAGGTAGGGAAATGCAAGCAAGAAAACAGTTTCTATTAGAATTTGTTTATACTGTGCAGCTAATCAGTGAATGTTAATGAGATATTTGCTTGTTGGGACTTTGTAACTATTTGCACGTACATTTTTTTTTTTCCTAAGAGAATTACTCTTGCCAAAATTACTTATTCTTTGGAACAATACTGTCTGAGCATCTGTCTTCATTTCTGCAATAACCAATTAAAGAAGAAAAGTTTTACCTTTTTTGTAGCTGGGGGAATTGAAATCAATTAAATTGTTTGATTGAGAGTCTACAAAAAAAAAAAAAGCAGCAAGATCTGTCGGTAGAGTAGAATTGTACAGCAGAATATGAAATCTCGGGTAAATATGTACAGAACTGAACTATCCTTTCTTAACCATACACAATTCAAAGATTAAATATTTTACTACACAG
Seq C2 exon
GCAATGTTGGAACTAGCACGTTTGTATCTTGCACAAGATGATAGTGACGCCTGTCAGCATCAGTGTTCCTTGTTACTGAGGAGTGAGCAAGATAACGAAGCAGCAACGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010956:ENSGALT00000038446:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PD(13.1=17.5),PF145591=TPR_19=PU(35.8=38.1)
A:
NA
C2:
PF145591=TPR_19=FE(53.7=100)
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:
GCTCGGGAATTACAAGCCAGA
R:
CGTTGCTGCTTCGTTATCTTGC
Band lengths:
297-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]