GgaINT0048322 @ galGal3
Intron Retention
Gene
ENSGALG00000009824 | C2orf77
Description
NA
Coordinates
chr7:20060626-20062478:+
Coord C1 exon
chr7:20060626-20060782
Coord A exon
chr7:20060783-20062295
Coord C2 exon
chr7:20062296-20062478
Length
1513 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCTTCTGCAGAATAACACAGGAA
3' ss Score
-2.15
Exon sequences
Seq C1 exon
AATAAAGGAGCGCAAGCATCAAGCAGATCTTGCCAAGCTGGAAGACAAAAGAGAAGGAGAAGAAATACAGAGATTGAGCCAACTGTACCAATTAGAACTTCTGAGAAAGATGGAAAAGGAACAGGAGAAAAAAGTTGAACGCCAGAGGCTGTATCAT
Seq A exon
GTAAGTAACAGGAAAGCAAAGAGTTCAAAATGCTCGCTTTGTTCTGTAGTGAAACAGTAGTGTTGATTAATATAGCTTAACAGGCCTACTGGCAACAGGAGCTTCAGTATGCCAGGTACCATGTACTTCCCAGTTTTATGCCCATTTTTCTTTGATAGGAAAAGGAAATAATTAGAGTCTGTGAATATGAAAATAATTGGAGGGGTTTGCACAGTTCTATTCCTGTCAGCATTCCCCTCTCCCATGTGTGTGGATGGGAGCAAGGGATAATGCTCCCTGCATTGCACAGTAATGGGTTGGTTGCAGCTCCAACCCACGTCTGATACTTGATTCCCCTTCTTTCTCTTTTCTACCACCTCCCCTTCATGCATGTTCAAACCAGATGAGGAAGCAATAAGAATCCCTTTCCTCTCCATTCTCTTTGAAAGAAACATGAAGAGAAGGAGTTGGAAGTGATTCTTTTCAGTTGCTAATCCAGGCTTAGATTTTCTAAATTTCACCTGTTATCAGGATCATTTTGCCCATACAGGAACACGTAGCTAACCAGAAAATAATCAAAGCAGTGGAGAAACAAAAGCAAATGGAAGAAGACAATCGGATTAGAGCTCAGTTTAAAGCAAAGCAAACTATTGCCAAGCTGATGAAAGAGAAAGAAGCTGAATTGCGTAGGTAGGTTCAAAGCTGGCTTATAAAATGTATCTAAATTAAGAATTACACACTTTTCTTATTCAAATATTTCAGACTGATGACATAACAAAACCCACAATTAGTCTGTAATTAAATTCTACTCAATGGGGCGTAGAGAATTCAGGACAAAAAGGAAGTTCTTTCACGGCATCATTAGTAATAGATCTGTGAGTTAGCAGTAGATCTCCTCGCACCTCAAAGCACAAAGGTTTACAGAAGTGCAAAGTTCTACTCCAGTGTGTTGGGAACAGTGATTTTCTTTATGGCCTGCCAAACCTCCACCATCTCAGCAATTAAAGACAACTAGAATCACAGTTAAAAGTATTTTTGGGCATAAGCTATAATTCTCTGAGATAGATCAAGAAAAATAATCACGCTCCTTAACAAGGCATCTATATTAATTAATTAAATTACTTTATTAATAATGCTGTTAGTAAGGTCTACCTATTTAACACTGAAAGTACTGCATGAATATGCCAGTAAGTTAATCAAACCATTCCTATTTCTGGCCAGTACTTCCTGCATGTCCCTCCTTAATAGCAAGATGCTGGTCAGACTTTGAATGATACAGCACTTTACTGCAACAAAAAATCATCATGTTATGAAAATATAGGGAACACTTATTTGTTAAATCAGATAATTAAAACAAAACAAAACAAAAACCAACAGGAGGAATACAAGGAGATGAAGAAGTGGAGTGGGTGGGCCGGAGAGTGGCAGGAAGAGGTGACAGGCAGCCAGATCGCGGGGTCTGGTAGAAGCAGTGCTTCATGTAGACGAGGTGCATATGTTATGAATACTCACGTTCTTCTGCAGAATAACACAG
Seq C2 exon
GAACACCGGGATAAAATTGTTAGGCAATTAGCTGCCCAAATGAGTGAAGTACTGAAGATGGAAGACAAGCGTATTGCTAGAGAAATTGCAAAAAAAGAAGCTGCACAAGAAAAAGAACAGAAAGAGAAAGAAGCAAAAAAAAAGGCTGTCATTGAGTCTATTGCTGAACACAGAGCCACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009824:ENSGALT00000015986:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.475
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=FE(23.5=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTGCCAAGCTGGAAGACAA
R:
CAGTGGCTCTGTGTTCAGCAA
Band lengths:
311-1824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]