GgaINT0048242 @ galGal4
Intron Retention
Gene
ENSGALG00000010956 | TTC21B
Description
tetratricopeptide repeat domain 21B [Source:HGNC Symbol;Acc:HGNC:25660]
Coordinates
chr7:19164544-19166575:+
Coord C1 exon
chr7:19164544-19164744
Coord A exon
chr7:19164745-19166445
Coord C2 exon
chr7:19166446-19166575
Length
1701 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TTGTTTTGGTTTATTCCTAGCCT
3' ss Score
5.36
Exon sequences
Seq C1 exon
GAATTATCTTTCTTGCGTGCGGTCCTTGCTATGAAGAAGCATAAGAGACAAGAAGAAGTGATTGCCTTGCTGAATGATGTTCTGGATACCCACTTCTCAGCTTTGCATGGTTTTCCTCTTGGTGTGGAGTATTTTGAAAAACTGAATCCTGATTTCCTGCTAGAAATTATTAGGGAATATCTTAATTTTTGCCCAGCAGAG
Seq A exon
GTAGGTGGCTGTATTCTGCACCTCTCTGAAAACAAACTAGTTTGGAATTTTTCTTGAGATTGGGCAATCATGAAATAAAAGCTTAGGACACTTTTCCCCTTGAAATGTGAATTTCTATGAGGTGAAACTGCTTTTTAAGATATCATACAATCATTTAATCAAAATAACTGTGTAAATACTTCTCTTGCAAAGTCAGCAGGTACTGTAATATCTGAGGAAACTTAAGATATTAGTTTCATGGCCTGCATCTGTATTTGTACAGAATTTACTTTTGTCTTTAGAATCTCTTGTGATCAAGTAACTAAGAATACAGCGACTATAACTATATTAATGAGAAACTTGGTTATTCACACTGTAATTATTCTGGTGCTGAAATGTTTTTGTCAGCTCAGGATATCTTTTCATTTTAACCTTCTTTTGCATGATGGCAAAGGTCAGTGGAATACTACTTGATCAATACTATTACTGATTTTTAATTTTAGATGGCTAACTTGCTGTGACTGAACTTGTTTGTTCTAGTTTGGACCTGGCATCTCTAGAGTTGAAGAAACACTTTTAAAGTACCTCCAAAGAGTGTCTTCTTTAAAGCGATTATTCCTCTGAAATAGCGAGGAGTGATCTTTATTGTGTTTCTAGCAGATTCCTAGTCAAATTGTAGAACCTTTCCATAAACGCTTCTTTATGTAAAGCTATAAAATCCAACCAGCAAAAACAGCAAGTGTTCCATTGTTGTAATTTATCCCACTGTCTTTGAGATGATATGGCTTGAAAGTCTAGAATAATATAACTCCTTGTGATTTTGTACACAGATGGAGATAAAATAAGTGTCATTCTATGAAGCAGTGTCTGAAGGTTTCCTTAGGATACATAATGGCAATGGTGGTTCTGTAATTTGGCATGGAAACTGAACTGTTGTCTTAACAACCATCCATAGAAGAATGTGAAAAATGACACCTTCCCTGAAGTTTCATTATACCTTTATGAAAAAAAGAGATTGTAGCTTCCCGAGGGCGCTTGTCCTGAGAGGATGTTAGGGGTGAACAGAGGCATTTTTATGTTGTCTTTTGCTTGTTATATTATGTAACTGCTTCATGGGATGCAAACCGTTTATTATAAAAGAGCAACTAAAATGTGATACAGTATAGCAGTTGATGTGAAAGACTGGATGAAGTGGTTATTTTCAGGCTGCTGCTTTCAATTTGGTGATAACTATGAGGGTAAGTCCTGTGGAATGGAAAGAGTATAGGGGAGACAGGACCAGGAACTTTTCTTCCCATCTCTGTGATCATTCCTTCCAGCTTTGGCTCTGTTAAAATTGGGTTCACATTACCACTTTGTTGGATCAATTGGCACAGTAATTCTGAGCGTGCTGCCAAATGTTTATGGACAGCTCTTCAGTTACGTCAGGTCTGGGTCTGTTTTTCCTGGAATTCATGATGCACTTTTGTGTTCCTGCTGATATCAACAAGTTGCACTTTAGATGTGAAATGTGCTCTTATTTCTTTACAGCAACAACTTTCGTCTCTTCAGCTTTACTGTTGTTGTTAGGAGTTTAAAGTGAAACTCAGACTTGAAATGGAATTCAAGTCCAAAGCCTACTAACAGATATGTTACTTCTGGGTTTTGTTTGTTTGTTTTGTTGGGTTTAGTTCTGTTGATTTGTTGTTTGTTTTTGTTAATTTTGTTTTGGTTTATTCCTAG
Seq C2 exon
CCTGCAAGTCCTGGGCAGTCTCCTTCACCACTTCTCAAGCACTGTGCTTCTGTTCTTGAAACTGTGGTAAAAACTGTGCCAGGTCTTCAACAAGCTGTTTTTTTAATTGCAAAGGTGAAATATTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010956:ENSGALT00000038446:11
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:
NO
A:
NA
C2:
PF145591=TPR_19=PU(4.3=6.8)
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:
GAATTATCTTTCTTGCGTGCGGT
R:
AAAACAGCTTGTTGAAGACCTGG
Band lengths:
302-2003
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]