GgaINT0044468 @ galGal3
Intron Retention
Gene
ENSGALG00000008905 | F1NEB3_CHICK
Description
NA
Coordinates
chr6:28910083-28911915:+
Coord C1 exon
chr6:28910083-28910217
Coord A exon
chr6:28910218-28911769
Coord C2 exon
chr6:28911770-28911915
Length
1552 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTTTGGTGGACTTCCTGCAGGTG
3' ss Score
8.16
Exon sequences
Seq C1 exon
CATTACTTAAGTTGAAGCCGATTGATGGTCAGTGTGCCATAGAAACCAAGTATGTGAAAACAGCATGTCTGCCAGATTTTGAATTTCCTGTTGGGACTGACTGCTTCATTTCAGGATGGGGCGAGACGGAGACAG
Seq A exon
GTATGTGAGTTCTCAACGACTTGCTGGAGTTTGGTTGGTAGCTTGGTGGCAAGGTGAGCTGCTGCTTTTATAGTGGCAACTGCTAGACACAAATGCAGGGCTAGGGACAGAGTGAAACCAAGGCATAGAATTAAAAATTAAGGACAGCAGAACCCTCCTTTGGAAATGATTTGTTGGCAGACATCTCCAACTGCCAGACACACCAAACTTGTCAGAGTTCTGAAAAAATCCCCAACATGTATTTTGTTGTTGTTGTTTGTCATCTGACATGCCACGTCACGGTTTCATCTGGAGCCAGCCACTGAAGCAAGAAGTATCAAGAGAAAAGCCATAGTACTGCTTAAGTGTTTCAAGAGGGGACCAAGGCAGGACTGGCGTTTCCACACGCTTTTCCAGCCCATTGGGTCAGATAAAGTTTTTCAGAAGCAGCATCTGGATCTTCAGATGCACTGAAAAATAAAAAAACATCCAAAGCTTTTCAAGTTCAACTAGCTCTGTCCAAAACCTTCCTTGCCCACAGTAAATCCTGAGGGGAGAAATTACTATGCTTTAGAAAAGATAATGGCAATTTTCTGAAAAATGCATTTTTCTCATGTCCCGATTGATGTCTTGCTGTAAAGCAGCAGAAGGAAAATGTGTCACTGAGTCTGCAGTAGGTGTCCTAGTGCTTTGTGACTGATACAGCCCGGTATGCTACTTAGGGCCAAATTCTTCCTTCTGATGTAAGTCTCATTGAAGTCCACAAGAGACAAGCACGTATATTTGATCAGAAAGCACCAACAGAATTTAATAGACAGTTTTTAAAAGCTCCAAATAAAAAGCATCTTAAAAAGGATATGGGGAATTTTTGTGTTTTTTTTTTTCCTGCAAAGAATACAAAGTACCCTGTGCGTGTTCAAACTGGATGGCTCCTTCTTTGCACAGAGCTATTATTAGCATTTCAGGAAATTACTGCAGAAATGGAAAACTTCCTGAAACTCAAGCAGAACCCAACTTATAAACCATCTTTAGTTATCTACAGATGGTAGCGCTTTGATACTCTGGCTATCGCCTTTAGATGTCAAGTTATGTCTTTAGATTCACTGTAATTAATTGTTGCCTTTAAATATTGCATGATTTTCAGTTTTCATCTGTTTCATTAGCCCAAGTATTAAAGCATGGAATGGCACCAGCCTGAGAAGTGCTGAGCAGCTCTAAATACCGTTGTGCTTAGTAGTGGGAGCTGCAGATGACCAACACCTTTGAAAAGCAGGAGATACCATTGCTACATGCAGAGCTGATCTGAGCCAGATTCTTGATGTGTGTGTGTGTGACTTTGCTTTTGTTCAGGCAACAGCTCGGTGTCCTGAGTGAAGCTTTCAGGCTCAGACTCTAACCCATATCAATGCAGACAGATACTTCTTTTCTTTCCAGGCCAGACCATGAGGCCCTTCCTGCTCTTTACCCCTTCCCATCCATAAGGCAAGCAAATTTGTATTTTGAAAAAAAGACAACATGTAACAGGAATGTGAGGAAGGTGACTCAATTTTTTTTTTTGGTGGACTTCCTGCAG
Seq C2 exon
GTGACATGTCCCTTCAGCTGTTAGATACCAGTGTCAAGCTGATTTCGCAGAAGCAGTGCAATGCACCCAGAGTATATGATCAGAGGCTGGATGAAAGCATGTTTTGTGCAGGAAATCTTCGGAGAGGTAGAACTGATTCTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008905:ENSGALT00000033102:11
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:
PF0008921=Trypsin=FE(19.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
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:
TACTTAAGTTGAAGCCGATTGATGGT
R:
CTGACAAGAATCAGTTCTACCTCTCC
Band lengths:
278-1830
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]