GgaINT1000872 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NQR9]
Coordinates
chr12:8698147-8699627:-
Coord C1 exon
chr12:8699537-8699627
Coord A exon
chr12:8698337-8699536
Coord C2 exon
chr12:8698147-8698336
Length
1200 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TGACGAGACTCTCCTTTCAGACC
3' ss Score
6.46
Exon sequences
Seq C1 exon
AGTTGATCGAGCTTTACAAGTCTATTCTGAATCCATGGAGGAAAAGCATCAAAGAGGTTCTGCACCTCCAGTCCCAGAACTACCTGCCACT
Seq A exon
GTAAGTGTGTATTTCCTTAATATTGTCACTACTGCTTATTTTGTGCTTTATTATTGGGACATTTATGCTTTTATTCTTAATATTCATTTAAAGATGCTTGTGTCTGTTCTTAATAACTCATAAATAGATTTATATTCTCAAGTAGTCCCATTGAAATTGATGCTAATATATATACCAATACAAGTCTGTTAATGTACTTGATACATTAGAAGTTCTTTCTTTTCTTTATACAGATGAGCTGTGAACAAAAGCAACGACGAGTGAGTCAAATTCTTTGTTCTGCATTTTGAGAGTAGAATAGTGAATGGTATTCAGAGGAGCTGAGTATGTGATATGGAATTTGTACCTGCTAAACAGGAAAAACTTTAGTTGTAGTCTTGTGTGGGGAAAATGGGATATGAAGCAAAAGTGGTAATCCTTTCTTGTGGTCCAGTAGAAGGAAAGTATTCTGTTAGAGGAGGCGTGTGTATGTCTACTGATAACTGAAGTTTTAATCAAAACCTTCTTTGAAGATCATTACTTACCAAATATTCTAAGAGGCTTCGGATTTTTTTTCAGTTGAGGTCGTAGATCATGCTGTATCCTTTACAAAAATAGTCTTTAACATTATTCACCTGATTTCAACAGGGAATAGTCGTGTACAAATACTGGTACAATTTTTAAAATAATTTATCTATGAAAGCCACCTTCAACCTAAATCAGCACTGAAATGCTTGTGTTAAGCAGACTGCTTTTTGTTGCTGATGCTGGGTAAACTCATTCTGAAGACTAGAGAGATCCAGCTCCCCTTTCTGCTTTATCACAAATGCATCACTTGGAGGCATAAATAGGTGTTTCTTTGGCAAAGTAAAACTAAAAAAAATCCATCTGTTTGCTCTTAATCTTTGCTAGACGAATGTTTGTCCAAAGAAAAGTAGTATGAACAATAGTATGAATGATTTATTGTTAATCATGAGTTTCATCAGTGAAACAAGTGAAATGGCTGAAAAGTTCAGTGCTTTGTGTTTGAGCACTGAGACCATTCTATCAACTTTAGAGCAGCAGTTAGTGTGTTAGTCAGTGAATGCGTAACAGATATGATTATATTCCCTGCCCTCAGTTATAAAAAGTAGTAAATAAAAAGAGACTTCACTGCGAAACCTAATGAAAGAAATACTTACGCAGTTTGTTGTTAGAGCTCTGACGAGACTCTCCTTTCAG
Seq C2 exon
ACCAACTATCTCTTTATGAAGAAGTGTGTCCAAAGTAATCCGGTGGTTCCCATTCAGCAGCAGTGGCTGATGTCCATGCTCACCCTGGTGCCACAGCCACTCATGGAAGGCAAAGACAGAGAGCTGTTAATTGAAAAGCTTTTAGAGGAGATAATAAAGGATTTTGAGAAGAGTATGAAAAGATGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005601:ENSGALT00000008986:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTTGATCGAGCTTTACAAGTCT
R:
CCACACATCTTTTCATACTCTTCTCA
Band lengths:
281-1481
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]