GgaINT0039993 @ galGal3
Intron Retention
Gene
ENSGALG00000001915 | Q8UUX6_CHICK
Description
NA
Coordinates
chr8:993128-995878:-
Coord C1 exon
chr8:995727-995878
Coord A exon
chr8:994116-995726
Coord C2 exon
chr8:993128-994115
Length
1611 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
TTCTTTTTCTTCCTTTTTAGGTG
3' ss Score
14.07
Exon sequences
Seq C1 exon
TGCTAAGTCCAAAGGTGATAGGCATTGCCATTGCAAGGTATGACTTCTGTGCAAGAGACATGAGAGAACTGTCCTTACTGAAAGGTGACGTTGTAAAAATTTATACAAAGATGAGTGCAAATGGCTGGTGGAGAGGTGAAGTAAACGGAAGG
Seq A exon
GTATGTTTGTTTTCTTTCTCTCATTTTGAATGACATTGTGAAAAACAAAATCAAAAACCAGCAACAATAGAAAAAAAAAACCAAGAAAACAAATATTCCTACATCATGAGCCTTATTTGTATGTTTAAGTTGACAAGACGCAACATGTTTTCAGAAGTCCTGCTGGGTAGCTTTTCTCAGCAATTAAATTGTTTTAACGTGGCCTGCTCGGCTGCATGTTTAGACAAGATTATATGAGTGGAAAATAACCAGATTAATAGTAGTTGAACCTTCTTGAACTGTGTTGCTCACATGGATTTGGGGGTGGGATCAGAACCTCAGGATCTGGTTGAGTTCCTACTGCTGGAAATCTGGTTTGCAGATTGGCACAGAATGCTTTCCACCTCACTGCCAGACTACAATGCTATAGACTGAGACATGTTTTTCTTAAGAGACTTCTGCTTTTGATCTCTAAAAAACTGTGTTTGAGATTAATTATTGTGTGACTTCTTGATGCAGGTTAGTTTGGAATACTTTCTGCTTCCATTTCCATGTTTTAAGGGCTGAGATGCAAGGTCAAAGAGGGCCTTTTCTCTCTCCTGTTCTATGAGTGAGTTGGAGGAAAGTGATTTGAGTGGAAACTGGAAATGGAAGTTGGAAATCTGGTTGAAGTAGTTGAGGAAGGATATATCCAGATTTAGTGCCCTATCCAATTTGAAGAACTTCTTATGGCAGACAAGAAGAAAGTAGGAGTCAGAAGAACTAGTGATCATCTTGTGTCCTTTATGTGTTGAAGAAAATTGAACGTTTCATGTAGTTATACACTTCCGAAAGAACTCCTGTTATAAACTAGCATTCTTTCCGGTAGTTTTCACTGCCTGGAATTGAAATCATATGATTATTGCTGTTTATGCAATCACTTCTTACAGCGTTGTTTGACGTTTGGTTTTGAGAACTTTCATCAATGTTGAATTGGCTTAAATTGACTAACGTGTAGATGAAAAACTAAAGTGAATAGTTAAGACAGTAACAAATATGATGTTGCTTCCCTATATGTCTAACACAGTTGTTATTTGACACATAATTTCAGAATGGAGATGATGGTATAAGTTATGAAGTATGACACGCTGGTCTCTGACTTGCAGTTCTGTCTCTTTTACAAGTCCTGTTGTCAAAAATGAGATTTAGCAGCAATTGAATCAGTCACTTTTAACTTTGAAAGAGGGTTCTTTGGACATGGCTGAAGCCTGTGAAATATTTAACTGTCCATTCAAGAGACAGCAGCATCTTGTAGTAGAAACTACTGGGAAAAAAAAACAACTGCTGCTGCAGCCTTTTTTTTTTTATTTCTAAATGCATAGTTGTCCAATTTGGGTAAAAGTTCTTTTTCTAATTTTTCTATTTTGATTGAAAACTGAGGTTTTAGTCTCTAAATCACTGTATCTGAAAGTTATCTGTAAATTACTCTATTTACTTAAAAAAAAAAAAAAAAAGTTATTAACTTAACCAGGGCAGATCAGACTAGTCTCTTAGTAATTTTTAGTTATTAAAGAGACTCATCCTTGTTTTTACCAAGTTTGGGCTTTTAAAAAATGTATCCTTTTTTTCTGTTTTCTTTTTCTTCCTTTTTAG
Seq C2 exon
GTGGGCTGGTTTCCATCTACTTATGTTGAAGAAGATGAATGAATTAAAAACTTTTCTCTGCTGACCAGCAATTTCAGGGATTGTAGAATTTAATAACTTCAAGCATTAATGGTCTTGTTAAGTACTTAGGCAGCAGCATTTTCTGTCTGAACCTTCTAGTCTTATTGTTGGGATTTATAAAGAACTTTGTACTAGCAGATTATTACCTTGCCCAGAGCTGTGCAAGAAACAACCTGCCACTTTGCTGTCACTGGGGATCAGTACAAAGTCTGGCGCTCACCTTTCCAGAAGATTTCAGGAAAACAAATTTCTTTATTCTTTTTCATTTTTTCACACTGTACTACACCATGAATAGTAGCTATGGCTGAATGTTTAATAAGTCTGTTTTCTTCTAGCTAACATCTGTGATGGTACGAGGAGATGAAGGCTTATTATTCCTTATCACTGCATGCAGAAAGCGTAGTTCAGTCATTCAGGTGGGCATAAACTGTAGTCAATAGACTTTTCAAAACATCAAACTACCTTACTTATCACCTTGTAAACAGTTCTACACTAAAAAATTCATTCTGAAGGAAACATAAATGTAGTAAACATGAGTAGCATGTATGCATATATAATTAGTTAACTGAATTCTTTGAGGTTTTGCCTAAATCTTCTAACAATTTGTTTAAAGAAAGCATTTCTGAAAAGTTAGGTGACATGATATTGCTTGAGAAATCATCTGTGTAGTGGAATTCTGGGTTCGTTCTTTGTCTTCTCAGCTTTATTAGTTTAGCAACTGATCACTGAATTGCAACCTGAGGGTAATTATGGCAAGATTCATTTAAAAATTTTAAGCATTTGGATTAAATAATTATTGTCATGCTATTGTATAGCAGGATATACTGATGCAGGATGATTTCATTTCTTGAGAACAAAATTGTATATCTTAACCTCTTGAATGATTCACATGAACTTTTTGATGCTTCCAACTATAAGCNNNNNNNNN
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001915:ENSGALT00000002946:25
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:
PF0765312=SH3_2=PU(75.9=80.4)
A:
NA
C2:
PF0765312=SH3_2=PD(20.4=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAGGTATGACTTCTGTGCA
R:
TGTTTCTTGCACAGCTCTGGG
Band lengths:
352-1963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]