GgaINT0083448 @ galGal3
Intron Retention
Gene
ENSGALG00000022812 | E1BY32_CHICK
Description
NA
Coordinates
chr3:111595948-111597726:+
Coord C1 exon
chr3:111595948-111596133
Coord A exon
chr3:111596134-111597563
Coord C2 exon
chr3:111597564-111597726
Length
1430 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTC
5' ss Score
5.3
3' ss Seq
CTGTTATCTTCTTCTGTCAGCTG
3' ss Score
8.13
Exon sequences
Seq C1 exon
ATGGACTGGAGCAACTGCACTACCATGGCTTTAGTGTTCATCCTGACTTTTTTGTTCATTATGAAAATTGGAGGTCTCTGGAGTAACCACTGGAGAAAGAACTTTCCCCCAGGACCAAGGGCGTTACCCATCATTGGAAATCTTCATTTGTTTGATTTGAAGAGACCCTACAGGACTTATCTACAG
Seq A exon
GTAGTCATTATCTTTTGTATTGGACTCAACAATCCCTGTGGATTGCCTCCAGGATACTCTATTCTATTCTTCAGGATATTCTATGATGCTTTTTTTCCCATAATTACACCTAATTGCATAGTGAAAGATGTCAGAGAATTTCCCTTACCTCACTTGGTATGTTATCTCACAGATGACTCATTGTAAGAACAGGAGACGATCATTTGAGCACTTATTTGAATGCAGCAAGATTTGTTCTTTGCTATAACAACTTCTCCCTTCACTGCAACTTCATGCATTTGGGGGTCAGCATCAAACAGTTCTCACAGTAATAACAAGTGCTCATAATTCCCTCCATCTTCCAGTGGTTATGTGGGTTACGTAACTATAGCCTACTGCCTCACAGACCTAGCAGCCTCTCTCATCTTCCTTTCCTCCTTTCCTACCAAAATATTAAGATAACTGTACACTTCTAATTTTCAGGTCCTGTAGTTGACAGAATATACAGGAAAGATCTAAACAAACTAAAGTAACAACTCTTCTGCTTCCCTTCTGGAGATTACATGTCTTAGTTTATTGCCGGGCTTGCCCGGCTTTGAGTCAGAAGATTTCTATGAGTCTGGTACTATCCTCTTAGGGTTTGTTTCTGTCAGATACTGCAAATGCAATATCTCCTTGGTGATGATTTTAGATGGAATATTTGTACCTACATATCTGCATGAATGTCACAACCACAGATTGAAAGAAGGCTCAGATGCAGTTTTGGAAAATTATTTGTAGATATCCCATGCAACCTAACTGGCTTGGCTCCACCTCCTTTCAGGTCAACAGAACCTGTATATCGTTGCTGTAATTGCTGTGTCTATTCTATCAGAGAAGGCTGATCCCCCAACTTGAGTTCAGCTCAAGGCTCAGAGTTCACACGTATTCTGTGCATAAACACAACTGGAAACCATACATTCATCCTCACACCAACATTGCAAATGGCAGAAGGCTGTTAGTGAGGAACACCCTCTGTAAAGATAAAATTCTGCTGCAGCTACAAGAGTCTGGGATGACAATATCCCCACCCAAGGCACTACCCTTAATTCAGACTCATCACTGCTGCTATATCACTTTGTACAGGTGCTGACACTTGCTTATCAGCTGCTGATGGCTTTGACTGCCAGTGCTAAATGCTTACCATCAGATTCCCTGTACAAACATTCTAGAAAGGAAGTTCAGTCACGCAGACCACCTCATATTGTCAGGAGAACCAAGAACATTGCGTTAAGTAAAAATAAACGAAGCTAAAAAGGTGCCAGCTTTGGCAAAACTGCTTAGGAAAACATTTTCCTAACTTATGGACAAGGCAGGTAAATAAGCAGCCAGTTTTTTTTCACCACTGAAAAGGTGGTGAATCTGTCTGTAGGCTGCAAAAGTTGTAAGTCACTGTTATCTTCTTCTGTCAG
Seq C2 exon
CTGTCAAAAGAATATGGTCCTGTCTTCAGCGTTCAGATGGGGCAAAGGAAAATAGTAGTGATCTCTGGGTATGAGACAGTGAAGGAAGCTCTCATAAACCAGGCAGATGCCTTTGCAGAGAGACCAAAAATCCCAATCTTTGAAGATCTGACCAGAGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022812:ENSGALT00000026936:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.7=41.9)
A:
NA
C2:
PF0006717=p450=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTGGAGCAACTGCACTACC
R:
TCCTCTGGTCAGATCTTCAAAGA
Band lengths:
342-1772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]