GgaINT0014064 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2248757-2250546:+
Coord C1 exon
chr14:2248757-2248975
Coord A exon
chr14:2248976-2250383
Coord C2 exon
chr14:2250384-2250546
Length
1408 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
GTATTTATTCACTGTGACAGCTC
3' ss Score
6.55
Exon sequences
Seq C1 exon
ATTCTGGTTTCTGATCCAGCCATGGCCATAACAAGCTTTCTGCAGTGTGTGGCCATCAGCTCGCTGCTCTATCTGGCAGCAGGGCTGGCCGTTCTCCTTTACTTCACCACCAGCTGGAAGAAGAGAATTTGCAATTTGCCTCCTGGGCCGCAGCCTCTTCCTCTGATCGGAAACTTGAATGTTGTGGACCTGAAAAAGCCATTCCAGTCGCTGACAGAG
Seq A exon
GTAGGCTGGGAGTGAGCAGGCAGGGGGAAAGCATGCAATTCCCAAAGCAAGGAATGCAGCTAGGGAAATGGAGATGCAATTGTGTGCTGACAATGGGGAGACCCAGTCCTGCTAAGTTCATCCGGGCAGCCACAACGAGAGGGCCTTGCAGATGCTCAAATTCTGCAGTTAGTGGTGGAAGAAGGACTTCCTGGGCTGCAAAATGCATATTTCCTACAGCAGTCACACAGCGTCCATTAGCCTTCATCTGTGGTTCCACCAGGTTTGTGCAGAGCAGTTTCCATGGCCGTACCATAGGCATGCCCATAGGGAAAGCCACCTATTTCTGGCAGTCCTGGGGGATCCCATGATACAGCTGTCTCTTGAAGGCACCGGATTCACTTCCCATAAGCTGTCAACCAGCTTTAGGCTTTCAGGTGTGCTGCATTCAATCCTTGAGTTGCTGAGTAAAACCAGGGCTGACACCAAGAAGTCCTAATGAGAAGAAATAACCAAAGGCAGGCCGGGTGGTGGCTGTGATGTGCTGCCCCAAACCTGCTGCACGCCTGTTCGCTGCCAGGGAGGCATGAACCAGCGCTCATGTTATCTCCCAAGCTGTCAAATGGTCATTTGATGAAAACAAATTTAATTTGTCTGGTGTAATAACAGGAGCTGCTTCTAATCTGAAATTCAATTTTCGGTATGCACCTAATGCATAGCAAACGGTAACTCAGGCACGTCGGAAACAAGGAGACATTTGGAGCGGATGGCTTGCAGTGTTTAAACTAAAGCTAAAATACCAAGTGAGTGATTAGATTGTCAAAGCCACTCTTCTGTGTGACGGATGATTCATATTTAATTTCCTATAAAAGCCCAGTGCTCCTGTGACATTATATACAAGAGAATGCTTCCTAGTTAGGCTGAAGTTTCTGGTGGCCAGCAAATGATTTCACCACGAATACAACACTACCTACCTTGCAACAATTAGGGACAAGTGCTGTCCTGAAAGAGTTATTGTCTAGCTTTGTTTTTGTAGTGTTTGTGGCTTCAGCCCCGAAGTGGTGCCCACACCCGTTTGCCTCAGGTCAGTGGTATTAAAATAAACAGCCTGCCTGCTACAGCATTTGCAAACAGCCTCCACACAGTAGTATTGCTATGCTGGCCTGTTGCTGCAGAACACCACAGGAATGCAGTGCTTTTTTATTGACTGCTCATCTGATAGGAGTAGCGATAGCAGACACCTTGTTGTGCAAACAGGGTGCAAGCAGAGATGCTGGCAGTGATAGCCGTTGCTCAGCAGTCGCAGTACAGCAGCACCTGAAGACCTGGAGCAGGGCTGGGAGGGACGCTGCGGGCTGGAAGCTAGCTAGGGAGGTAGCGTTTGGGTCCAGCTCTGGTTCAGAATGAACGTATTTATTCACTGTGACAG
Seq C2 exon
CTCTCCAAGCTATATGGCAATGTCTTCACCGTGCATTTCGGACCCAGGAAAGCTGTGGTGCTGGCTGGATACGAAACCATCAAGGACGCCCTTTTAAATCATGCTGAAGAATTTGGAGAGAGAGCAGAAATACCCATATTTAGGAAAATGACACGAGGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(5.7=35.6)
A:
NA
C2:
PF0006717=p450=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCTGCAGTGTGTGGCCATC
R:
CGTTTCCTCGTGTCATTTTCCT
Band lengths:
346-1754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]