GgaINT0145595 @ galGal3
Intron Retention
Gene
ENSGALG00000000327 | Q804J3_CHICK
Description
NA
Coordinates
chr28:365265-367126:+
Coord C1 exon
chr28:365265-365496
Coord A exon
chr28:365497-366957
Coord C2 exon
chr28:366958-367126
Length
1461 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CTCTGCTTTTCTGCCACCAGACA
3' ss Score
8.62
Exon sequences
Seq C1 exon
ATGAAAATGAGTGCTCCAGCCCAACTGCCTGTGGCTCTGCCTCCTGCTACAACACTCTGGGAAGTTTCAAGTGCGTCTGTCCGTCTGGCTTTGACTTTGACCAGGCCTTTGGGGGGTGCCAGGATGTGGATGAATGCTCAGCTGGCGGCAGCCCCTGCAGTTATGGCTGCTCCAACACGGATGGAGGTTACCTCTGTGGCTGTCCTGGAGGCTACTTCCGAGCAGGACAAGG
Seq A exon
GTAAGAGCCAACTCTCTGCTGTAGGCATTTCTTAGATTTGAGGTATACCTGGATAAAGCACATTTGAAATGCATCTAGAGTGACGTTCAGAGACTGAGACTTGCCCACCATGGCCCAGCATGATCAGCAAGATGGGAAGCTGGTTCTCACCCCAGCTTGTCTCCAGCCTGTTTCTGGAGCCATGTCTTTCTGTAGTCATGGATGCTTTTAGACTCAGGTGAACCCTGAGCCTGGAAATGCTTCCTGGCAAGGACCCTGTGCAGTTCCACTCGCTGCCCCACCCTCACCTCATCTGTAAGTGATCATCTCTCAGCACTGTGGATGCTGAAGTGCAGCTGTGTATCAGGTGCTGTTCCCAACTCAGCTTGTGCTTCACCTCGACTTTGTGAAGCAAAGTGCTTGAGTGCTCTCTACTGCCAGAAAGCAACCTCACACTCCTCTCCTGTGCTCCAAGACTCTTTTAAGAAGTGCCTGCTGCTCTGCGCAGAGTATGCAGGTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGTACCAGGTGATGGTGTCCCAGCTCCACCACAGTTTGCCATTTCAGGCCCCTGAGAACAATAGCCAAGGTGGGCATGAGCTGCACAGTGTGTATTTTGTGGTGTCCACACAGACACCTGTACATTGCCAGGGGATGCTGCAGGTTGTTCTGTGCATGCTGTCCCCAGGCGTCCTCTATCACCACAACTCTGCTGCCTGCCAGAGTCACCAGAACAATCTGAGGGAGCCTTGGAAGCCAGTGAGCTCCCATTCCCATGAGCCCTTGGCTTCTCCATTGCCAGACTGTTGCTGTTCCCTCGCAGAATCCCCTTGCTACTGCCCATATCCTCTTCCCAGGTCCTTTTCCATATCCCATATGCTCTTCTAGCTCACTAGTTAGTGTAGTTGCTAGCAGTGTAGCAGATGCAGCACAGATTCAAACAGATTGAACCTACTGCCATATTAAACAAAATGTGGCCTGATACCTCACTCGGGCATGTCCTGACCATAAGGCATTCTGCATAAGCCATGCAAGGCGTGATCTTCCCCTTGTGTCTGGGTGCCACATGGGGAATGCATGAGGGCAATGCTGTTTTCCTTCTCGAAGCATGAATTTGTGATGGAATTCTCTGCTTTTCTGCCACCAG
Seq C2 exon
ACACTGTATTTCTGGCTTGGGCTTTGGGAAAGGGTCCTACCTTCCTGCCCCTCAAGAGGAGGATGAAGACAATCTGCTCTCCCCTGAAACCTGCTATGAGTGCAAGATAAATGGCTACCCCAAGAGAGGTAGACAACGACGCAGTGTCAATGGCACTGAGAGGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000327:ENSGALT00000000433:63
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=0.281
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=51.3),PF0764510=EGF_CA=PU(92.3=46.2)
A:
NA
C2:
PF0764510=EGF_CA=PD(5.1=3.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCCTCCTGCTACAACACT
R:
CACTGCGTCGTTGTCTACCTC
Band lengths:
343-1804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]