GgaINT0046941 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21343324-21345186:-
Coord C1 exon
chr7:21345092-21345186
Coord A exon
chr7:21343453-21345091
Coord C2 exon
chr7:21343324-21343452
Length
1639 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATCTTACATATTTTCCCCAGATA
3' ss Score
8.11
Exon sequences
Seq C1 exon
CCCACATTATTCAGCATGCTTATCATGTGCACTATTTTGACCAACTGTGTATTTATGACCATGAGTAACCCTCCTGACTGGACGAAGAATGTAGA
Seq A exon
GTAAGTGAAATGGATTTTCTTTGAATTATGTTCAGTCATCTGAAATAAACTGCTGTTAATGATGTTACACTAATAAGGATAACATCTACTGACAGCAGCTACTTCGTAACATGTTTTAAACACCTATTCAGATGCTAGCTTCTTCTCTGTAATATTACATCAGTGTATTTTTCAAGGCTTCCTTCATTGCAGAATGTTGAGTTTGCATTCTCTGTTTGCAGTATTAGATGGGTAATGTAGGAACAAGATGCTAGTCTTACAAGTATGCAAAAAAAGTGGATGCATTGCAGGAATAAAGAGATAAAGAGTGCAGTAAAGACAATCTGTTAGTGATTTACTTTTTTTTTTTTTAATGAAAAAAAAGGTTTTTCAAAAGTATTTCAGTGATTGGCTAATCCTCCCATAGGAAATAGCAGCTAGAAAGAGAAAAGTTCCAAGACAGCATCAACCCCAGTCCCCATATACAGTTGATACATATTTTGTGATTGTTTCAAGGCAGTGCAAAATACTGCTCTTTATGATGCTTCATTTTTGTAATAACATCTTATGCTTCTGCTGTAACTTCACTTCTAACTGATTTGGATGATAAGTGCATGTTTAATCTTCAGTAATCAACAGTGAAATCATAGGACAATTAAAGTCAGTGTAGGCATTCTTGTTTTGAATTGCATATGAACATATATGTATTCAGGGTATCTAGCATACAGTATTTATGAACAAATATAGCTAGCTTGAATACTTACTTGTGTCATATTGTGCCCTATGTATATATAATGCAAATCTTAGTCATCTATTGAGTGAAGTTGTGTGGGAAAAACTTTTGTTTTTTTCTTAGTGACTGAACTGAAAAATATCATAACAGGAAAATTGGTTTCAGGTTGATTGTGTCTGAAAACCAGTGTGAGCCTTTTAAACAGTTTGACTTGAAACAGTCTGTTTTACCTTCTTTTTGATTAAAGATATAAATTAAACTAAATTTCAAAATGGCATCATTTGGAGATAGAAAATTAAAATGACTCAGAATGCCAGAATTAAGCACTTATGTTTCAGCAAAATTTTTTTAGTCTAAACAAGCACTGCATTTTATTGGAATCTATACAAAGTTTTGATTGGTCTTGCGCAGGATTTTGCATCTGAAAATACTGATCTTGTTCCAGTACTATGTTTGTCCAGCTGAGGGTGAACTACTGGGTACAGCTACTCTAACAAAGTGAATGAGTGCTGATGAGATTTGACACATTGACAGATCATGGTACTCTACAACATTTCAGCATAAAAATAATACTGAAGAAATTAATATTCAGATTGGAAGCAACTTCTGAAATTATGACTTCGTATGTTTTTTCTTGTAGAATTAGGTTGGACATAAATATGTGCCAATGAAATAACAGGGAATTTTGCAACTAACTTGTTAACATAGATTGTACCATTTGAACCTCAATTTATGGATTGTCACGTAGTCTTTTAATCATGGTTTGATTCTTCTCCTTTAAGGAAGAAATTCTGCAGATGTTTAAAGCTGGTTATGTCTATTAAATTCTTACGCTTCTCAAAGAGTAGAAAATGGGACTAGAGAGCATACTGTGTAGGGATAACATGAGTATGTTTTTATAAACTCTATCTTACATATTTTCCCCAG
Seq C2 exon
ATACACATTCACTGGAATTTATACCTTTGAATCACTTATTAAAATTCTTGCAAGGGGCTTCTGCTTAGAAGATTTTACATTTCTTCGAGACCCGTGGAACTGGCTAGATTTCACTGTCATTACATTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:4
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:
PF0052026=Ion_trans=PU(0.7=7.1)
A:
NA
C2:
PF0052026=Ion_trans=FE(15.9=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:
CCCACATTATTCAGCATGCTTATCA
R:
AAATGTAATGACAGTGAAATCTAGCC
Band lengths:
222-1861
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]