GgaINT0046946 @ galGal3
Intron Retention
Gene
ENSGALG00000011009 | F1NN72_CHICK
Description
NA
Coordinates
chr7:21337218-21338360:-
Coord C1 exon
chr7:21338219-21338360
Coord A exon
chr7:21337425-21338218
Coord C2 exon
chr7:21337218-21337424
Length
794 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TATTATCTCTTTTTCCCCAGACA
3' ss Score
10.12
Exon sequences
Seq C1 exon
TCAATGTCCAGAAGGATATATATGTGTGAAAGCTGGTAGAAACCCCAACTATGGCTACACAAGTTTTGATACATTCAGTTGGGCATTCTTGTCACTGTTTCGATTGATGACTCAGGACTTTTGGGAGAATCTTTACCAGCTG
Seq A exon
GTGAGGACTTATTAAAATAAACAGCACCATCACCAATACCATTACTACATAGTATTTGCATAGTTCTTTTCATTCACATGTACCTGAGATCTTTGGGACACAAATCATCTTTTATTTCATATATATAAGCTCTCTAAAACAATAGGGGCCTTAGATTTCTGTGTGCTTCTTAAATACATAATAAGAAATAATTGTTAAGAATTATTGTTTCCTTTTCACAAATGAGTAAATGAACTTGTTAATGCTTCTTGCCCAAACATGTTGCAGACAGATGCTTGCTAAATTGATTTGCAGTCTAGTAGAGTTATATTGTCTTTGAGAAGGTTACACCTTGTCCCTGAAATACACACATCCTTAACCTGAAGGACTGTGATGTTGTGCAGGATGACATTTTGTATACTGCATTGGCTTTGTGGTACTGTAGTTTGAGTCTGATAAGACAAGGTAAGATACTGGCTAGTGGCCCCATTACTATTAAAGTAGTTTAAAGGCTATATTAAAAAGATATAATGGAGGCAGCAACTCCTGTAAGAGATTTTCATTGATAGGTGTTCTGAACTATTTAAACTACTGAATCATAGTCAGCTGTACCATAGCAGACACAGAACTTGGATTTTTACACATGTAGCTACGATGTAATACTATCTAGTTGTATGTGGAAAAAATAGCATAATCATCTTGTGATAAAAAAGAGAAAATTTACGATGTATTTCTAATCTATACCATAGATACCACAAGATTATATAACAGTGTGTAAAAGTCTTCTAAAAAGTGTATTATCTCTTTTTCCCCAG
Seq C2 exon
ACACTGCGTGCTGCTGGAAAAACATATATGATATTTTTTGTTTTGGTCATTTTCCTGGGCTCTTTCTACCTGATTAATTTGATCCTGGCTGTGGTTGCTATGGCCTATGAAGAACAGAATCAAGCAACCATGGAAGAAGCAGAACAGAAAGAAGCAGAATTTCAGCAAATGCTGGAACAACTGAAAAAGCAACAGGAAGAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009:ENSGALT00000017933:9
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=0.194
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(21.0=100),PF146251=Lustrin_cystein=PD(48.6=37.5)
A:
NA
C2:
PF0052026=Ion_trans=PD(11.4=44.9)
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:
CCAGAAGGATATATATGTGTGAAAGC
R:
CTGAGCTTCTTCCTGTTGCTT
Band lengths:
342-1136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]