GgaINT0109012 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1BZ82]
Coordinates
chr1:24085878-24087666:+
Coord C1 exon
chr1:24085878-24086446
Coord A exon
chr1:24086447-24087594
Coord C2 exon
chr1:24087595-24087666
Length
1148 bp
Sequences
Splice sites
5' ss Seq
GAGGGAAGT
5' ss Score
3.43
3' ss Seq
GCTTAATTTTTTCTTCATAGGTT
3' ss Score
9.17
Exon sequences
Seq C1 exon
AAAAGACAGCATATGAAAAGCAGACTGACAAAGCAGAAATTTCTCATCAGGAAACCCTAGCAGAAAATGAGGAATCCCACAGTGCTGACAAGCAGTTAAGTCTAAAGCCGTGGGAAGAAAGATATGAAAGAATGTGGGTTGAAAAAGAGAAAAGGGAGTTGAAAACAAATTTTAAAAACATTACAGCAGAGCTGAAGCAGCTGTTTGGTGAAATTAATGAATCTGAGAAAGCTACATCCCTTGTGGCAGAAGTGTCAGAAGATGACTTCAATGAAGAATTGAAGAGTTTTCGTGTTTCATCTTGTGCGACAGAATCAAGTAATAAGTTAGAAAGTAAAGGTGAATTTGGAGACATGAAACTTAACGTAGACCTGAAAGAGCCCAAAACGGAAATTGTAATTCCGAGTCTCGGTGTCCTTCCTGATCACAATAACTTAAATGCAAACGTGGAAAATACCTGGAGTACAGATGAAGAAGACTGCACTAATTACACAGATAATACAAATGTACCTCTAGCAAAAGGAGAGGAAATGGAAGAAAATGAGAATGGGATTAGTAAGAGTGTAGAG
Seq A exon
GGAAGTCCTGAATATTCCCCGAGATATTGTTTAAAAACAAATATTTTGGATGACATTTCTAGTATTCTTCCTAAAGTAAGACCTATTTCCACAAATGATGGAAGTACACTTGATTTTATAAGAGAGAAGAAATTTGGCAAGGACGTCTGTCTTAGTGACAGTGTTTCCAGAGACTGCTTCATCAAAAACAAGGAAATAGGAGAAAAAGAAATTGAAAATCTTTTTCCACATGCTCAGCAACCTTGTGGCATGCTGAAAAGGAATCTGGATGAAGAATTAAAACAAGATGTGGAAAGATTTAAGAGTAAGGTAGGAATGCTGCAAATGGTATTCCTGGCTTTGGAGAAAGAGAAGGTACAGCTACAAAAAGAGGTAGAAGTTCACCTGCTGCTCCTTATTCGTTAGTCTTTCTCCGTATCAATGGTCCTGTTCATGTTAGCTATTGATCATTAAAAGAAGGTGCTTTGTGCAAATTGTTTTTTTGTTGTTGTTGTTTTAAGGGATGAACGTTTTTCATAAATAAGGAAAGCAGTGGAGAATTGTACTTTTCCCCATAATGTAATCAGAAGGTTTTGAGAAATCAAAATTTATTGTTTCAGTTTAACAATAGGTGGCAGTCAGTTCCAGTGCAAGTAGTTATCACCTCATTGCCATAAAAAGAAATGCATACAAGTACACCGGTTTTGATTCTCGATGAAGGAATGAAAATAGCTTCTGAACAGGGTCTTGACTTATCTCTTCATTTGCTGTGGTTTGTGCATGATGTGCCTTCATTGCTTTCCACTAAAATTCCTGATTGCTGTGAAACTGTTTCTGCTTGTGAGTTTGTTTTTTTTTTTTCCTCATTGTTAAGGAAGTACCCCATCATACATCCACTCATATTTTGTGTTTCTACAAGTAATGTTGTGTATTCTGTCTAATTTCTTGCTCACCAGTAACGCTTTTATTGTTTATTTCCTGAGGGCTGGTTTGTTGTTGTTGTTGTTGTACTTCAAATTATGAGTGAATTCAGAGTGTTTTCATTGACTTGGTACACTTTATAGTTTCTTTTTTATTTTACATTATTTTAGGAGTCAAGCTTAGATTATTTGGTCTTAGATCTCCTTTAAAAGCAGAAAAATATATGAAGCTTAATTTTTTCTTCATAG
Seq C2 exon
GTTGAGAAAGAAAAAAGGAAGCAGAAACATTTCAAAGTGCAAGCAGTGGAGAAACAGGAAGACCTTGATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.703 A=NA C2=0.708
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTGTTTCATCTTGTGCGACA
R:
GGTCTTCCTGTTTCTCCACTGC
Band lengths:
344-1492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]