GgaINT1001673 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NWS8]
Coordinates
chr2:42140061-42141645:+
Coord C1 exon
chr2:42140061-42140648
Coord A exon
chr2:42140649-42141085
Coord C2 exon
chr2:42141086-42141645
Length
437 bp
Sequences
Splice sites
5' ss Seq
CAAGTGCGC
5' ss Score
4.41
3' ss Seq
TTTATTTACCTTACTTGTAGTGT
3' ss Score
6.77
Exon sequences
Seq C1 exon
CATTCGCAAAACGATATGCTGATGTTATTTTCCTTATTGATTCCACGGAGAACATGAAGCCTTCAACATCTGAAAGGGTAAAACACTTCATCTCCCAAGTAGTCCGACAACTAGATGTTGGGCTTAACAAGTATAGGATTGGCCTAGCCCAGTTTAGTGGCATAGGAAAGGTGGAGTTTTTACTGAACACGTATGAAAACAAAGAAGAGGTGCTTGATCACATTCAGCGCAGCATTGCATTCACTGGAGGCTCACTACAGAATGAAAGTGCCATAGAGTTTTTGAAGAAAACCTTTTTAATGAATGGTGCTGGAAGTCGGCTCAGTGAAGGCACTCCACAGGTTGTTGTGATCTTCACATCTTCTGGATCCAGAAACAGTATCATGGAGGAAGCCTGGGTGTTAGAAGACATGGGCGTAAAAGTTACCTTAGTTGATGTTGAATACTTTGACAAGATAGAAGCAACGGTGAGAGAACCCTCTAGCAAGGTTTATCAGATTTATGAAGTGGAGAGCATTGACCCTGTGCAACAAAACATTGTCAATAACATAGAAACTTCACTTCAGATGCTTTACGACCTTGATTCAA
Seq A exon
GTGCGCCAGCAGGTATGTTGTATCAGAAGAGCAAAACTGGCAGGTGAAGTAGATAACTCACTGGGAATCCAGAGCAACTTCTCAGGTGGCTGGGAGGGAAAAAACTGCAAATTTCTGAGAGCTTCACCTTTACAGAGGTGTTCTATTGGAAAAAAAAAAAAAAATATATATATATATATATATAATATTCACCACTTTTTGTCATGTAGTTGCAATGTTTGCCTGTGCTTAATTTGTTACAAATCGGTATTAACTAAGGGGAACAGGGCAGTGGTCTGGAGGGGTTGACTGCAGTGAAATTGCCTGTTCTGAATGAGGGGACAATTTTCCTTGGATTTTGTTTCTAGGAAATGGCCATAGGGGGTTTTGTATTTAACCATAGTCCCACAGTGTGACCTACAGTAATCTTATTTTCCTTTTATTTACCTTACTTGTAG
Seq C2 exon
TGTGTTCCAGTGCAACTGTGGCAGATATTGTGTTTCTTGTGGATGAATCCAGCAAAATTGGGTCAAAAAACTTCCAGCTGATTAGAGCTTTTCTGTTAAAAATTGTTAATGCCCTTGATATTGCTCCAAGCAATGTAAGAGTTGGGCTGGTGTTGTACAGTAATGAACCAAGACTAGAGTTCACTCTCGACACATTCAAGGATAAACTGGAAATACTGAACTACCTGAAGAATTTACCATATCGAGGTGGGCAAGCATATACTGGAATAGCGATTGAATTCCTGAGGAATAAGGTTTTCACTCAAGAGGCAGGCAGCAGAAAAAAACAAGGAGTGCAACAGATTGCTGTGGTTATCACTGATGGACAATCCTTGGATGATTACATTGAACCAGCATCAAAACTAAGACGTGAAAGTGTTACAGTCTATGCTGTGGGCGTCAAGAATATCACAGAGGGTAGCAAACTTGATAAAATTGCAACTTATCCCCCAAGGAATCATGTTACCACCCTGAAGTATTTCCTGCAACTGTCAAATATAAGATGGAAAATAAAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011567:ENSGALT00000018866:9
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:
PF0009223=VWA=WD(100=89.8)
A:
NA
C2:
PF0009223=VWA=PU(98.9=95.2)
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:
GGGTGTTAGAAGACATGGGCG
R:
ACTGTACAACACCAGCCCAAC
Band lengths:
353-790
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]