GgaINT0012757 @ galGal3
Intron Retention
Description
NA
Coordinates
chr14:15236940-15237822:-
Coord C1 exon
chr14:15237721-15237822
Coord A exon
chr14:15237068-15237720
Coord C2 exon
chr14:15236940-15237067
Length
653 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTACTATTGATTGTTATAAGGAT
3' ss Score
5.56
Exon sequences
Seq C1 exon
ATCATAGATGACCATGGGGCTGTTCTGCCTGAAGGAGAAGAAGGCAACATTGCTATCCAAGTTAAACCTTCACGACCCTTCTGCATGTTCTCTGAGTACTTG
Seq A exon
GTAAGTTCAAGTTGTTCTGCCTGCCTGTGCTTGCTGAGAAGCTCAAGAGAGATGCAGGGCAAAGTTACTTACTGAGGAGCAGAATTTCATCCAGCATCTTCACAGGGTCTCTCTAGGTGACTTGAGAGCTCTGAGCCTGATCAGTATATCTGATCAAGAACAGACTGGCAGAGTATAACTGCAACTTGCAGCATGAAGCAGAAGTAGTTTGTTCCACACCTGTACCTGACCATGGTAGATTTTCTCTGCTGCATTTGGTCCATCACAGTGAATAAGCCTTTAGTAACCTAGCTATATGTTTCATCCTCTTCTGAACCCACATAATATTTGGGTATTTGTAGCATCCCCTAATAACAAGTAATCATGTGATTAAAAAAACTTACCTTGGTTTGGTACTATTGCTTATACATTTTAGCAAGATACTGCGATAAATGAGCATTTTGATGGAGCACAGCCTTGTACCCTAGAACATGAATCCATGTACACACACATTCTTTTCCGCTTCTCACATACTTCCAATGAAAGACTACTAATTAATATAATTCTTTTTTTTTTAAACTAAATTCATAAAATAGTGTTAAACATACTACTGTGAGAATTTGTTAAGAAATAGTCCTGATCACATTCTTTCCTTTACTATTGATTGTTATAAG
Seq C2 exon
GATAACCCAGAGAAAACTGCTGCCTGCATGACTGGAAACTTTTACGTCACTGGAGACAGAGGGATTATGGATGAAGAAGGATATGTCTGGTTTGTTGGAAGAGCTGATGATATAATTAATTCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001961:ENSGALT00000003035:9
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:
PF0050123=AMP-binding=FE(8.0=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(9.9=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATAGATGACCATGGGGCTGT
R:
ATATCATCAGCTCTTCCAACAAACCA
Band lengths:
214-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]