GgaINT1001348 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:H9KZK0]
Coordinates
chrLGE64:656172-657996:-
Coord C1 exon
chrLGE64:657684-657996
Coord A exon
chrLGE64:656502-657683
Coord C2 exon
chrLGE64:656172-656501
Length
1182 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTCCTTCTGGGTTTTTTCAGGGG
3' ss Score
10.26
Exon sequences
Seq C1 exon
CCTTTCCAAGTCAGGCTGGTGAATGGCCCTGACTCCTGCACGGGGCGGCTGGAGGTGTTCTACAACAGCACCTGGGGGACGGTGTGTGATGACCACTGGAACCTTGCAGGAGCCCATGTGGTGTGCCGGCAGCTGGACTGTGGGATGGGGCTGTCTGCCATTGGTGGGGCTCGGTATGGCCGAGGAAAGGATCCCATCTGGTTGGACAACGTGCAGTGCACTGGGATGGAAGCTGCTCTTTCCGAGTGCAGGGCACGGCCCTGGGGAAACCACAACTGTGGGCATGGAGAGGATGTCAGTGTTGTGTGCTCAG
Seq A exon
GTGAGGCTTGCTCCGGTCTTGTCTTGGATCACATGATCTCCAGAGGTCCCTTCCAACCTGAAGCATTCTTTGATTTTGTCTTGCACCAACTGCTGGGGACAGCCAAAGGATTAAATGGTGGACAGAACTGTCCCTCCTTTGTAGTGGCTGAGCTTTTGAAGTGCACAGAGCATGGGGCTGGGAAAAGGTTCTGCTAATGTTGTAGAACTACAGAGTCACAGAATCAGAATCATAGAATCAGAAGATCACAGAAACATAGAGTCATAGAATCATAGAATCAAATAATGGCTTGGGTTGTAAAGGACCTTAAAGAACATCTATTTCCAAACCTCCTGTTGACTTTCACCAGATCAGGCTGCCCAGGGCCCCAGCCATCCCTTAGACACTTCCAGGGATGGGGCATCCACAGCCTCTCTGGTCAATCACCACCCTCATAGTAAAGAATTTCTTCCTTATATCTCTGTTCGCCTCTTTGAATATCCATGTCCACAATAATCATCTTTTGAACCAGGTGTAGGACATTCCTATAATAAGGTCTAGACAATATGGTTAAGAGCATCTGAGACATGAGTCTCGCCATCCTACAGTAGCCTTTGCTGAAGCACCCAGTTCTCCATTAGCACCTCCTTTATGATGAGATAAACCATTTGTCACCCACAGATGTTTCAGATGAATGCCCAGCAAAGTTCCTGATCAGTTGCTGGTAGGCATTGTAGATTTATGCATGCCCAGCAAAGATTCTGATCATTTATTTCTAAACATTGATGATGATTGCATGCTCACAAAGTTTCAGTCATTTGTTCCTAATTATTATATACGACTGCATGCTCAGCATATTTTCTATCATTTGCTCCTAAGCACTGTAGATGACTGCATGCCCAGCAAAGTTTCTGGTCATTTACTCTGGTTACTTTAGGCATTCTAGATGAATACATGCCCAGCAAAGACTCTGATCATTTGCTCCTAAACATTAAAGTTGATTTTTTGCCCAAGAATGTCTCTAATCATTTGCTCCTAAGCACTGTAGGTGTTTGCATGCCCAGCAAAGTTTGTAATCACTTTTTTCTTAAGCATTGTAGATGAATGCATGCCCAGAAAAGTTTGTGACCATTTGCTCCTAAACTCTGCAGGTGACTGCATGCCCAGAAAGACTCTAATTCTTTTCCTTCTGGGTTTTTTCAG
Seq C2 exon
GGGCACCTGCTCCAGGTGAGATCCAGGTCAGGCTGATAAACGGCTCAAGCTCTTGCTCTGGCAGAGTGGAAATCTTCCACAATGGCAGCTGGGGCACGGTGTGTGATGATGGCTGGAATATGGCGGCTGCTGAAGTGGTGTGCAGAGAAATGGGCTGTGGCTCAGCTCTGTCAGCCCCCGTTGGGGCTACTTTTGGGCAAGGGGCAGGACAAATTTGGATGGATGATGTGACCTGTGCTGGGACGGAGGCTGCCCTTTCTCTGTGCCAGGTCAGTTCCTGGGGAAGCCACAATTGTGGCCACAGAGAGGATGCTGGTGTTGAATGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009103:ENSGALT00000014816:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=93.3)
A:
NA
C2:
PF0053013=SRCR=WD(100=88.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGTCAGGCTGGTGAATGG
R:
GCTTGAGCCGTTTATCAGCCT
Band lengths:
358-1540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]