GgaINT0119257 @ galGal3
Intron Retention
Gene
ENSGALG00000015389 | E1C7W0_CHICK
Description
NA
Coordinates
chr1:91909235-91910082:+
Coord C1 exon
chr1:91909235-91909342
Coord A exon
chr1:91909343-91909971
Coord C2 exon
chr1:91909972-91910082
Length
629 bp
Sequences
Splice sites
5' ss Seq
GTGGTTTGT
5' ss Score
2.7
3' ss Seq
ACTTGACTCATGTTTTGAAGTTG
3' ss Score
3.41
Exon sequences
Seq C1 exon
CATGTCCACCCGGATATTTCAAGTGTTCTACTGGCTTATGCATTCAGCAGATGCAGCGCTGTGATGGGGTAAACAACTGCTTCGATGAAAGTGATGAACTCTTCTGTG
Seq A exon
GTTTGTATTTACTTACCAGAGATCTGGACTACAAAACCCGTGAATGTATACCGAATACATACTGAATGCATTCTATGGTCTTACAAGGCAGACAAAAAAAAAAAAAAAAAAAGCTGAAACTTATTTTAGGAGAAAGAAAGAAAGATGTTTCCAACTTCGTGTGTCCAGGTTCAGGCCATCATTTGATCTCTTGAGAATTTAATGAAAAAACTAGGAATGAAGAAGGTAAAAAGCAAGAGGAAAAAAATTAATATGAAAAAATAGTTGTAAGACGTATTTTAGGTTTTCCTCCTGAGATAAATGCTGGTAAACATGAAGTTCTGTTCTATTTCAAGAGTAATTATTTTTTTTTCATGTGGGAACAGTAAATTGTGTTGGATGCAGTAGATGGGAGTGATAATAAATGCCTATGGTTGAAAGAGCACAAGCCATTCCACTTGGGGCACTGTGTGAATTAGCATAGGTTACTGAAATCTTTTGTACTTTATTTACTCTATGTGTAATTTGGCACTTAAAATCATCCTGGTAGAGTGCAGTGACGCTATGGTAATGATATCTGGACATGGTCAGAAGTGTAGCGTTGGCATTGTGATAATGCTTCTGTAACTGACTTGACTCATGTTTTGAAG
Seq C2 exon
TTGTCCCTGAGTGGAACTGTAACTCCAGCTTTGCGATACAGGATAACTTGCTTGTCTGCAATGGAGTAAATGATTGTGAGAATGGAGAAGATGAGCAGAACTGCACTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015389:ENSGALT00000024825:12
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:
PF0005713=Ldl_recept_a=PD(94.6=94.6),PF0005713=Ldl_recept_a=PU(5.4=5.4)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(91.9=89.5)
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:
GTCCACCCGGATATTTCAAGTGT
R:
TCAGTGCAGTTCTGCTCATCT
Band lengths:
214-843
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]