GgaINT0048235 @ galGal3
Intron Retention
Gene
ENSGALG00000010956 | TTC21B
Description
NA
Coordinates
chr7:21134623-21136433:+
Coord C1 exon
chr7:21134623-21134745
Coord A exon
chr7:21134746-21136270
Coord C2 exon
chr7:21136271-21136433
Length
1525 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
ATTTTTCTTCCTTCCATTAGGCA
3' ss Score
9.19
Exon sequences
Seq C1 exon
GGATTGATTCTGAAAGCATGGCTTGATCTCACTTGTGGGAAAGAAACTCATATTAAAAAAGCTTTGAAGTACTTTGATGAAGCGCTTCAGGAAGGGAATGATGTTTTTGCTCTCCTTGGTAAA
Seq A exon
GTATGTTTACTTTGATTTTAGCACTTTCTAAATGTGTTGTTGCACCTTGTTAATAATTAGAGCTTGTTAATGATTAGAGTGTGTGCAGGGAGTACAGATACAGCTCAGTCGTATTCTTTTTGCTCTGTTGACTGGAGTATTGTTTTAAAAGCGTTCAGTAGATTTTAGAAGAAATGGTGTGAGTCACGCAATTACTTGAGGAATATAAAAGCTACCAAACAATTTGAGTTCTAGAACAATAAAAATAGCTGACATTGCATTTCTTGTGGTAAATAGCCTACTTGAAATAGTAGCTAATTGTACTGAGTAGCCAGGGTTCATAAGAATTTCACTTTCTGTCCTGATGAAGGTGAAGACAGAAGGACAGGCAGCACAGTGGTAAATAAGCAGTAACTGTGTTCAAGTGATGAGTTTTTTCTTTGAGTAAGATTAGCTTCCAAGTGACACCTTAAGGCCCAATAGGCACCAGTGTAAGAAAGGATGGCTACAGAAGAAATAGAGTCAGTCTGAATGTATACTGAAGGTATGGTTTTTAGTATGTGCACAAGAAAAACGTGTTGAATTCATCTATTCATGTGCAAGAAATGAAAACGTGCAGGTCAGCAGAATTTTTCACAGAAGACACTCATCCACGTCATAGAATTGCTATGTGCTGTCTCCAAAAAAAAATGTAGTAATTAAAACACTGCATCTGCAATGTATTTGTCTTATTCTAGTTGTCATTATTGAATTGCAAGTGCTTGTTTTGAACGTGGAATATAGAAGACTAAAGCTCAGAACAGTGCACAAAGTGTTTGGGTACACGTGTGTACGTGGCTGTACGTGTTCAATTACCGGTACACTGCAAATTGTTATTGCATTTAGATTTTAGGCAGATAATTGTCTTGCTGTTATTTAAGAAACTGTGGTAGCTTTTATGTTTGCACTGTGGCTCTCAAAAATATTAAATCAAATTATATGCATTCAATCGCCTGGAATTCAGTACGTAAATTTTAAGCTCCAAAGTAAAGTTGAGGACTTGAGCCCTAAATTGATTTCTACTCAGCGGAACTCATCTTAAACTGTGATACTGCTTCTGATGCACTCTTTTATTTAGAGTGCTGTACAAAGTACTTAAATACTGTTAAGTGTGGTGACAACGGTGACCTACGGGGACTGAAGATTTTGGTATATATCTCAAGTTCTGAATAAATTGTGTGATCTGTTGGTTATGTTCAATATCCTGAAATGTTGAAGTGGTTTAAACAAAAGCTGTCAAAAACTATTAAAACAGTGCCATCCTTCAGCTACATCTCCCTAGCTTTTTTCTTGTTAATGCTGTGCTGAAGTTAAACTTGAAATAGAGGTGCTTACCCCATACAGTATTTTACACTTCACTTTTCATATTTCTTTAGTATGATAATTCTAGCTGATGCTGAAGTATAACTCATATTGGAAAAATGGTTTCTGTACGGAAGGAAGTTCTGTATCTTTCTACTTCTGTGAGTGCACAGGCTTTTGATGCAATTTTTCTTCCTTCCATTAG
Seq C2 exon
GCACAGTATTTTGAGATCCGACAGAATTATTCAGGAGCTCTGGAAATGGTGAACCAGATAATTGCAAACTTTCCAAACTTCATTCCTGCTTTCATAAAGAAAATGAAGCTGCAACTAGCCTTGCAGGACTGGGAGCAGGCAGTTGAAACTGCACATAGGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010956:ENSGALT00000017831:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PD(42.3=73.2)
A:
NA
C2:
PF145591=TPR_19=PU(75.8=90.9)
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:
GGATTGATTCTGAAAGCATGGCT
R:
TCAACCTATGTGCAGTTTCAACT
Band lengths:
286-1811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]