GgaINT0097810 @ galGal3
Intron Retention
Gene
ENSGALG00000011007 | F1NN81_CHICK
Description
NA
Coordinates
chr2:31576264-31577937:-
Coord C1 exon
chr2:31577815-31577937
Coord A exon
chr2:31576361-31577814
Coord C2 exon
chr2:31576264-31576360
Length
1454 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTA
5' ss Score
7.26
3' ss Seq
AACTGTTTAATCTTTGATAGGAA
3' ss Score
6.16
Exon sequences
Seq C1 exon
GTTTCTTGAAGAAGGAAATATTGAAGCAGCTGAAATGCAAAAACAGAGAATTGAGCAGCTACAGAGAGAACGACGGAAGGTGCTGGAAGAAAACAATCTAGAGCATCAGCCTAGATTTTTCAG
Seq A exon
GTATTATATAATAATTAGTATATACCATCATTTATTGAAATGTTTACTACAGATCTGGTTCTGATCTGCCGTAAAGAAGGCTCCAGTTTTTCCCAGGTTTCGTCCATATTCTTGATTTTTATACTTAAGCAATGTAGAGCACTCCAGACTTAGTTAAGGAATACAGGATATGCTTTTTTATTACCACATCCCTGATTTTTTTATTTTTTTATTTTTTTAATTTTTGCTCCAAAGGTAAATGGTATTTGGTCTCAGTCTGGATTTCCCTGACGAGTGAGGGTGGCATCTTTGATTCTTTCAAGCAAGGTGAAGTGTAGGTGGTTTCAGCTTAATTAGCTCTGCTGAACTGCTGAATTCATTGGGACTGCCTTGTGCAGCAATGTTTGGAGCTAGAATCTTTCATTTTCAGGGCTGGTTTTGAACTTTTCCCCTATCTAATGGCAAGAGAGTTGTGATTTAGAGGTCATTCTGTTTCTTCCTGTTGTAAATCAAATAACAGGGGACTTCAGCTGTTGAAAGACAAGAATGAATGCTAGTGGCAACACGGCCTTATGCCCTCCAGCTTCACTGTTCAGGATGCAGTGAAAGAGTTAGACCCAAGATGAGTGCTGTATGGGCGAATGTGTCATAATTAACAGATCTGGGATACTATTTGTTTTTCTAGATAGACACAGTTCTAATGAGGAGTTAGACTTGGATAAACACAGAGATGTTTACAATAGATGCAAAAAGAAAATGGCTTAGACCTCTGCCTGTCAGAAGAGCTGGTGAGCTAATGAAATGGAGGCACACTTTCCTTTGCAGGAGGCTGAACAGACAGAAGAGAAGCAAGGTCTAATACTATGTTATTGTATATTCTCAATGAGGATTGTAAATAAGGATGAGGATTTGAATCCCTATAATGAGGATTTGAAAGCTGAGATTTGTGCTGTATGTTTAAATAACAGAATAAAAAATATCATTACTATATAGCAAAAATGTGAGCAAGTATTAGAGTAGATGTGAATTATGCATTTTGCTTTTCAGTAGTGATTTCTTCCTTCAATAGATCACAAGTTCTGCTTTACTTGATACATTAATTTGTTGTTGTTTTGTCAAAAATGTTGCACACTATGTGAAAAAGACTGATACATTCAGGGTTACAGCAGATACAGAAGCTTATGCAAAGCTGCATGATGGCATTTGAGACCATGAAGTAAACCTGGAGTGTAGTTTTCAGTGCTAAGCACTGACACGGGACAGTGAAACAAATGTGTATTTCCTCAAGACCCAAACATATCAGTTAAGTTCACCAAGCTATATTGCCTTGTTGAATGTTGTACTGAGCTTCCTTGCATCTGGTTTATGGGCTGGATTAGGTATCTGTACGTAGTACATGCTACATTGCATCACACAGCAAATACACAGAAAATATAAGCTTTATGTTTAAAAAAGAACTGTTTAATCTTTGATAG
Seq C2 exon
GAAATCCAAAGATGACTCCTGGGTGAGCAATGGAACCTACATGGACCTTAGAAGAGAACCGGGTTTTTCCAAACTGGACAATCCTGTGCTCTGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011007:ENSGALT00000017923:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.274 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(11.8=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=PD(4.6=48.5)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAAGAAGGAAATATTGAAGCAGCT
R:
CACCAGAGCACAGGATTGTCC
Band lengths:
214-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]