GgaINT0072428 @ galGal3
Intron Retention
Gene
ENSGALG00000014144 | F1NZW6_CHICK
Description
NA
Coordinates
chr4:68644104-68644953:+
Coord C1 exon
chr4:68644104-68644237
Coord A exon
chr4:68644238-68644770
Coord C2 exon
chr4:68644771-68644953
Length
533 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGC
5' ss Score
7.42
3' ss Seq
GCTTTTCTTTCATTTTGCAGGGT
3' ss Score
11.13
Exon sequences
Seq C1 exon
TGCCTTTTAAGCTCCAAGAAGGAGAAGTGCGCATCATTTCCTTAGAACAATGCCAGTCATACTTTGACATGAAGACTATTACCAGCAGGATGCTGTGTGCAGGCTATGAGTCTGGCACTGTAGACTCTTGCATG
Seq A exon
GTAGGCCTATCTCGAAGGAGAAACTCATAGCTAGAAATACTTCTAGACATCAAAGTTCTGTGACATTTATTAGGTTTAGCATACTTCATCTCGTAAAGAAATGACTACCGTCTCTTGACGTATTTTAGCCCAACTGTCACTGTTACTATTGCAACCAGTAGGCAGGCATTTGACCTGAGGGGTTGACCAGATCACTCTCAGCAGTCTCTTTCATCCGCAGTGCCTCTGATGCTGTGAAACTGAAATCAGCTGCAGTTTATGGTTATGAAATGCTGACATTCTGAGGTTTATCTGTATTAGTTAACCACTACACTAGCTTTTAAAGTAACTATAAGCCATTTGCAGGTACTTTTTTGTACAGTTGTAAAAGGGAACAAATATGGGTAACTGCATGCTACTACATAGTTCAGCAGAGCTGCCAGTCCTTACAGCTGAGTTACTTACTAAAGACAAATCACTCCAGAAACTGGGACAGAGCTTTAGCCATGTGACTGTTGGCTATGTATAGCCTCTGCTTTTCTTTCATTTTGCAG
Seq C2 exon
GGTGACAGTGGAGGACCACTTGTGTGTGAGCAACCTGCAGGACGCTGGACTTTGTTTGGTTTAACATCTTGGGGCTCTGTCTGCTTTTCCAAGGTTTTGGGACCAGGAGTTTACAGCAACGTGTCACATTTTATTGACTGGATTGAAAAACAAATATACATCCACACCTTTCTGCTGAACTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014144:ENSGALT00000022884:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.5=77.0)
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:
TGCCTTTTAAGCTCCAAGAAGGA
R:
TCAGCAGAAAGGTGTGGATGT
Band lengths:
312-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]