GgaINT0120024 @ galGal3
Intron Retention
Gene
ENSGALG00000016144 | F1NY88_CHICK
Description
NA
Coordinates
chr1:112391059-112392190:-
Coord C1 exon
chr1:112392048-112392190
Coord A exon
chr1:112391212-112392047
Coord C2 exon
chr1:112391059-112391211
Length
836 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TGCACCAATATTTTGTGCAGGGT
3' ss Score
4.8
Exon sequences
Seq C1 exon
GTAAAACAGCAAATGACTTGAATTATGTCATGGTACCCTTAATAGAACGTTCTACATGTAATTCTGTCTATGTCTACGATGGCATGGTCTTGCCTACAATGGTCTGTGCTGGATATTTACAAGGAGGAATTGATTCTTGTCAG
Seq A exon
GTAATTATTTCTAATTAACGCCTAACAGTGATCTGGTTGACTGTTTTTTGTGCTCTCATTAGTAGGGATTTTATCATCTGTTAATTCCAAACTGATACAATTTTTAATATGTTTCTAATTTTTATATATACATTTATGACTAACAGTTTAGTTGGGGTTCTAGTTTATTTTGTGGCACATCCTTTAAGAGGCAGAGCTTTTGTGTCATGCTCTGCATGGTGGCCAGTGCTGAGGTCTTGTTAAACCATGCTGAGAGGCTGAGGCAACCTTTGTATATGCTTCAAGGATGCTTGGTTATCTCATACTTGAAAAAGAACAATTGGTCTTTGTAATCACTAATATACTGTAGCATTATGCTTGTGAACAAGGAATTCAGTAAAGTTTGTCTTGTTTAGTGCTTTGGGCAAGCTATTTTCTTTCCTATGGTGAATAGTCTTCATTTGATACAGTAATTGCAATAGTGTTTTGTTGTAGTTGCTCTCTTGCGATAGTGTTTAGCTCTTGCTTTTGAAATCCAACTCGTATTCCAAGGGGGAATGGTTTTAAACTCAGGCAGGGGAGGTTTAGGTTGGATATTAGGAGGAAGTTTTTCACTCAGAGGGTGGTGACGCACTGGAACAGGTTGCCCAAGGAGGTTGTGGATGTCCCATCCCTGGAGGCATTCAAGGCCAGGCTGGATGTGGCTCTGGACAGCCTGGTCTGGTGGTTGGCGACCCTGCACATAGCAGGGGGGTTGAAACTTGATGATTACTGTGGTCCCTTTCAACCCAGGGCGTTCTATGATGCTGTGATTCACTGGTGGCCAATCACTAACAATGCACCAATATTTTGTGCAG
Seq C2 exon
GGTGACAGCGGAGGTCCTCTGGTAACAAACAAAAACTCTGTGTGGTGGTTGGTTGGAGATACCAGCTGGGGAACTGGCTGCGCTAGTCCCAATAGGCCTGGAGTTTATGGAAATATGACTGTGTTTACAGACTGGATTTATAAAAATATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:11
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:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGCAAATGACTTGAATTATGTCA
R:
AAATCCAGTCTGTAAACACAGTCA
Band lengths:
278-1114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]