GgaINT0047668 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21091582-21093275:+
Coord C1 exon
chr7:21091582-21091962
Coord A exon
chr7:21091963-21093142
Coord C2 exon
chr7:21093143-21093275
Length
1180 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGA
5' ss Score
5.55
3' ss Seq
TATTACTGTTCCCTGTGTAGGGC
3' ss Score
10.16
Exon sequences
Seq C1 exon
TCTTTGCTGAGCATTCGTGGCTCCCTGTTTTCCCCAAGGCGCAACAGCAGAACCAGTCTTTTCAGCTTCAGAGGTAGAGCAAAGGATATAGGATCTGAAAATGACTTTGCTGATGATGAGCACAGCACTTTTGAAGACAATGATAGCAGAAGAGATTCTCTCTTTGTGCCGCGCAGACACGGTGAACGGCGCAACAGTAACATTAGTCAGGCCAGTAGGTCATCCAGGATGCTGGCAGTGTTTCCAGTGAATGGGAAGATGCACAGCACTGTGGATTGCAATGGGGTGGTTTCCCTGGTTGGTGGACCATCTGTTCCTACATCGCCTGTTGGACAGCTTCTGCCAGAGGTGATAATAGATAAACCAGCTACTGATGACAAT
Seq A exon
GTAAGAAAGTTTTAAACAGCTTAGGCATCATGGCCTTTTCTTACTGCACCAGCCAGTGTTACCTACAGAATGGAATCCTTGGCAATGCTTCCTGGTTGGTCAAGCTGTGAATGCTCCTGCATCTTGTAAAATCTTTAATAATTTAAACAGATAAGATAGGTTTGCAACATAAGCATTTACTTACTAATATTCTCATAACTAACAAATGCAATTTGCAGTTTCCACATAGTAAAATATTAACTTACTTATACATCCACAAAAGCACCATACTGTATTACCAGGCCATGCATTCATTTTGCTGCTATAAATGTCTGTCTGGTTATGGTCCACAAAATCAAAGTTACGATACAGTTGAAAACAGTATACAAAGATGTTATCATATGTCTGCAATCAAACTGCTATTACCACTGTATCAAAATTAGCATTATTGGTTAATTTTGATAATATACAATTCTATATCAGACCCACTAAAAATGTAAGGAAGTAGTCAGTTCTTTATTACCATTTGTTTCTCATTTCTGTATGCTTCCATCCTTTGCTGGTGGAGTTCTATAGTATAAACACATAGTTAATTGGAAGATTGCATTTCTGCACATACTACCAAAAATACCAGTTATAAATGTCTGTGTGAACATATTTGCAGCACATATTGCTGTCACTGTGTATGTATATGCAGGTAAGAGAGAAGAACACTGAAATAAATTACTTAGTTCAAAATTGTCTACTCACATTAATTAGAAACATACTAGCATGGGAAAGCATGAGGAAGTCATACTTTTCTTACTTGCTACTGTTTGTCTAGTGTAAAAAAAACTATTATGTCATAGGAAATTGAATATTCTGTCAGCAAGAGCAAGGAGAAAACAGTTTACAAAAAAAGTACAGTTTTTTGAATTCAGTCCTTTTTTATTTCTTTAAATAATTCTTTTTCTAAGCTTGAAGGAAAGAAATGCAATAGTTAAGTGAATAAACTCTCACTAAATCTTGAACAGTTAGATAACTATTGCCTATTATCATTTAAAAATTATCTTAAAGATATTAAAAAGTAAGAAAAGTCTGACATGATAAAACTTGAAGTGCACGAAGCACGTATATATGCATATTAATAACAGGGATCTATGTAGTATTTGTCCATTTTATTATTCATATGTAGTCTCACCTATTACTGTTCCCTGTGTAG
Seq C2 exon
GGCACCACTACAGAGACAGAAATGAGGAAGAGAGTATCAGGCTCTTTCCATGTTTCTATGGACTATCTGGAAGATCCAGCTTTAAGAGAGAGAGCAATGAGCATTGCTAGCATCCTTACGAACACTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.551 A=NA C2=0.228
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(53.4=100)
A:
NA
C2:
PF119333=DUF3451=PD(15.7=82.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATTCTCTCTTTGTGCCGCG
R:
CGTAAGGATGCTAGCAATGCTCA
Band lengths:
349-1529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]