GgaINT0094998 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:41594398-41595747:+
Coord C1 exon
chr2:41594398-41594781
Coord A exon
chr2:41594782-41595653
Coord C2 exon
chr2:41595654-41595747
Length
872 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
ATTGTTTGCTTTCTCCACAGAAG
3' ss Score
9.55
Exon sequences
Seq C1 exon
ATAAAGATTTGATGAAGAAACATATCCAGGAGTCTGTTCACCAACTAGAAGGGCCATCAGCCATTGCTTCTGCATTACAGTGGACAGTTGAAAATGTATTTTTTAAAGCTCCCAGACAAAGAAAACACAGGGTCGTATTTGCAATAGTTGGAAGCAAAACAAGCACACAAGACAGAGAGAAGCTAAGAGAGATTTCACTTGGAGTCAAGTGCCAAGGATTTACCATGTTCACTCTTGCGCTTGGCAATGATCTGAGCGACAGTGAGCTGATGGAACTATCAAGCTCTCCCACAGATCAGCACTTATTGATATTGGGTAGGACTTCAAAGTCTGAGATGATATATGCTCAGAGATTTGCCCGGGCGTTTCTAAATCTGCTACAAC
Seq A exon
GTAAGTCGCATACAATGCTGTTCACTTAAGTTATGGAAAGAAGGATAAATGCTCTGTAGAAAAAGGCAGTTAGTATATGTACTACTTCTTAGTTTCTAGTCATAATGTAACTATTTGCTATTTCATCTATAGTTTGTAGCAGATGCAGCTGGACACTAATGGAATTGCCAGTAAATACAAAACAATAATACATTCTTGCTTGAGGCCAAAATCTTGAAGTTTTTTTTCTCATTAAGTTTGTATTCAATGTATGGCTAAGCTGACTTCACTTTTATGAAGGAAAGACTATTCTTCAGACACGAAAAACAGTTGTTCTCCTGATTTAGGCTTACATTTCTTCTCTGGCCATTGGCACCTACGTTTCTCTTCTGACCCTTGGCAGGTCCAGATTTACTGAGCTGTTAATGCTTATTTAGGCTTTTGGGCAGACAGAAGTTTAAACAACAGCAGATCTGGCCTTAACCTCTCTTTACTGAAGTTATTCTGCCTCTGTAGGGCAGAGAAAGAACTTCTGTAGTTTCTAAGACCTGTTACTGTAGATTAACAGTTTTTTATGCTTTGAAGTATATTCAAGAGAGTGTCAAGAAGGAAGTTGTCACTGACTTGAAATCCCCATCAGAAGCATGTGTTTAGGTAAAACAAATTTGCTAGAGTGTATTACAGAGGAAGACAAAAGTCTAAAGCATTTTTTTCAAGAGTTGCTCTCCTCTAGATGATCTCTGTCATTTTCATGTTTCTGGACATCTCTCTAGAAAGCATAAGATACAAACTCCAGCTAACAAGAAAATAAATCTTTTTCTGCTTTTTGTTAAACATAGTGGGGTTGGGAGGAATTTAAAACTCACTTGTGGTATTGTTTGCTTTCTCCACAG
Seq C2 exon
AAGAAATGAACAGTTATCCTCCTGCTGAACTTCAAGAGGAGTGTGAAAACTTAGATCGGGGTGACACACGAGATCAGATGTCTGTGACTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023088:ENSGALT00000037646:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.072 A=NA C2=0.844
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=94.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGACAAAGAAAACACAGGG
R:
TCGTGTGTCACCCCGATCTAA
Band lengths:
346-1218
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]