GgaINT0109015 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:26122879-26124232:+
Coord C1 exon
chr1:26122879-26123835
Coord A exon
chr1:26123836-26124079
Coord C2 exon
chr1:26124080-26124232
Length
244 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCATCTAACTCTTTCCGTAGGGT
3' ss Score
10.14
Exon sequences
Seq C1 exon
GAATCTGACACTAATGACAGAGAAAAGGATCTGCTGCACAGAAATCAGTTACTGCAAGAAGAGATTGCTATGCTAAGGCTAGAACTTGATCAAGTAAAACTTAGGCACCAGGAGAATGAAGGAAAATATTTAGAGGAAAATGAGTCTTTGAAAGAAAAAAATGATGACCTTCAGAAGGAACTTAAACTGAATGAGGAAGCCTTAACACAAACAGTACTTCAGTACAATGGACAGCTGAATTTACTCAAGACAGAATCTGCAATGCTAACTTCCAAGCTTGAACAGACAAAAGAAAGCAAAGACAGACTGGAAACAGAGATTGAATCATTCCGTTCCCGCTTGAATGCGGCTGTTCAAGATCTTGAACGTCATCAGTCATTGAAAAGTGATGTCGAACGAACATTTCAGAGAGAACGTGATGAATGGCTTCGTTTACAAGACAAGCTCCATTGTGAGCTCTCTGATGTGCGGGAGACCAACAAGAGCTTGTCTCAGCAGCTGAGTAAAATGGAAAGTAAAGCTAATAGTCTAGAAAATGAGCTTCACCAGTTTAAACAAACACTTCGAGAAAAAACACTGCTTTTAGAAATGACACAAAAAGACTTAAATCAAGCCCAGTGTCAGGCAAAAGAAAGTGATCATGCACGGCAACTTGAGAAAGATCAAGTCAGCAAATTTATGATAAAGCAGGAATCTATGCAGGAACGATTGGCCCAGCTCCAAAGTGAAAACCTTTTACTCCGTCAGCAGCTGGAAGATATGCAGAACAAGGGAATCATCAAAGAAAAGGTTGTGAATGATGTCCAGGACAAATTTAATGATATTTTCAACAAACTCAGAGCTGATACTGAAAAGCAAGTTTACCTCATGGAAGAGAGAAACAAGGAATTAAATACCAAGTGTACTGATTTAAGGGAACAAGTCTTTAAATATGAAACTGACAAGGTGGAAAGAGAG
Seq A exon
GTAAGCTGTACAGTTAGAAGAAATTAAAATGTTTCAAATCATAAAGTGATTTTGTATTTCTAAAATGCATCAGGTATAAGTTATATGCGTAGGACTAAATTATGTTGTTTTGTTGTTGTTCATTGTTCTTCTCTTGGAATTAAGGAAGACTTTGATAAATGGCTGAATTGTATAATCTAGTCAGTTTAAAGGAGTAAAGTCAAACTTCATGTTTTTCCTCATGTTCATCTAACTCTTTCCGTAG
Seq C2 exon
GGTATGGTCAGACAGCTACAGCAGGAGCTTGCTGATGCTCTTAAAAAGCAGTCTATGTCAGAAGCTTCCCTTGAAGTTACTACACGCTACCGCAGTGACCTTGAGGAAGACAAATTGCGCTTGCAAAAGGAATTGGACAGGGTTAAAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009104:ENSGALT00000014827:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.332 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF149151=CCDC144C=WD(100=95.6),PF088265=DMPK_coil=WD(100=18.5),PF136151=Racemase_4=WD(100=29.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTATGCAGGAACGATTGGCCC
R:
AAGAGCATCAGCAAGCTCCTG
Band lengths:
305-549
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]