GgaINT0081781 @ galGal3
Intron Retention
Gene
ENSGALG00000014463 | ACTN2_CHICK
Description
NA
Coordinates
chr3:39134536-39135989:-
Coord C1 exon
chr3:39135897-39135989
Coord A exon
chr3:39134767-39135896
Coord C2 exon
chr3:39134536-39134766
Length
1130 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TGTTTGTGTTGATTTGAAAGCTT
3' ss Score
3.88
Exon sequences
Seq C1 exon
GCTGAGACTGCAGCAAACCGGATCTGTAAGGTGCTTGCTGTGAATCAAGAAAATGAGAGGTTGATGGAAGAGTATGAGAGACTTGCAAGTGAG
Seq A exon
GTAAAGACAGCCTTTTCTGTAACATGGTGATAATTCGGTTCATGAAATACTGAAAGCTGAAAGATTCATGTACTGTCTGCAAGGCAGAAAGTGAAAATATTATTAAGGTGAATCTCACAGTTGTAGGGTACAAAGTTCAGTATCCCAAAAATGTCAAATATCAGGTCAGTCCTTTGCCAGAGATTTCCTGTGTGACCTCCAGCAAGTCATTCAGTCTTGTTTTCTTGTGCCAAAAAGGGTGTTTTGGGGACTGTCATCAGGCTGCCTTAGGACTAAGCTTGTTGTCTCTGTAACCTCCAGTGATAGCTCTTCCATCACCACACGTGGAACGTACAGGATTCTTTTACTCCAGGCCAGCCCACTGGCTTTATATACTGCAAGCTGTACCTGGACAGGGTCTCAGGGTGTTCACAAAACACCTGTGAACCCATACAGCAAATGAATGGTGAAGGCACACTGCTTGTGTTGTTTCTGATTATTACCAGAAGATTGTTTTTTTTTTTTTTTCCAAAGCACAGGTAATATAATTTTTCTTCACGAAGTATATACTGCAGACTTTATGAATCAGCTCCTCTTGTCTTTTCTTGGTATATGGAAAATCTATTGTGTCAGGACTGCAGATATGTAGTGCATGAGTGAGAGCTCCTTTGTCTTTATAATGCACAACCTCCAAAAACATACAGAGATGATAGACACAATGAGAGTAGTGCTGGATTGGTACTGAGGACTTCTGCACAAAAACATTTACATGTCTTGAGTTACTTGACTGATGTCCATTCTTATTTATGAACTATGACTACTTGAGACATCAGTACCAATACTTTTGAAAGTGGCCAGTGATACTGGGTAACTTGTGTTTTAATTACCTGGAGTCACCTTATGTACATGTCCGTGTTCATACCCTGAAAGTCAAGGTATTTCCAGAAGTATCTAGAATATCTGAGAAAGTTAGGGTTATTGTTCTGTTGAGAAAATTTTGTTCTTACTTGCCATTAGGACCCTGACTCCAACTGAAGTTAACAATAGTAAGATGGAGAAAACATGATTGAAATTTATGCATTAAATATTATCTTTTTGTTGTTGTTGCTCTTCCATTGCCTTAATTTAAATTGTTTGTGTTGATTTGAAAG
Seq C2 exon
CTTTTAGAATGGATTCGCAGGACAATTCCTTGGCTGGAAAACAGGACCCCGGAAAAAACAATGCAGGCCATGCAGAAGAAATTAGAGGATTTCCGGGACTACCGCCGCAAACACAAACCTCCCAAAGTTCAAGAGAAATGTCAGCTGGAGATCAATTTCAACACCCTGCAGACAAAACTGAGAATCAGCAATCGACCAGCTTTCATGCCATCGGAGGGAAAAATGGTTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014463:ENSGALT00000023354:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(9.9=35.5)
A:
NA
C2:
PF0043516=Spectrin=FE(68.5=100)
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:
TGAGACTGCAGCAAACCGGAT
R:
ACCATTTTTCCCTCCGATGGC
Band lengths:
318-1448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]