GgaINT0101664 @ galGal3
Intron Retention
Gene
ENSGALG00000007169 | EPC1
Description
NA
Coordinates
chr2:14082581-14083524:+
Coord C1 exon
chr2:14082581-14082947
Coord A exon
chr2:14082948-14083218
Coord C2 exon
chr2:14083219-14083524
Length
271 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
CGTTATTGTTGTTTCAACAGGGA
3' ss Score
8.93
Exon sequences
Seq C1 exon
GAGTATACAAGGGCTTACACCTCAGTAGTACTACACCTACAGCACTTGTCCATACAAGTTCATCATCAGCAGCGGGTTCAGCCTTGCTACAGCCTTCAAATATAACGCAGACTTCAAGTTCCCACAGTGCACTGAGTCACCAAGCATCTGCTGCCAATTCTGCAACAACTCAGGTTCTGATTGGGAACAACATCCGATTAACTGTACCCTCATCAGTTGCCACTGTAAACTCTATCACCACGCTCAATGCACGACATATACCTAGGACTTTAAGTGCTGTTCCATCATCTGCCTTAAAGCTGGCTGCAGCGACGAACTGTCAGGTGCCCAAGGTTCCAGCTTCATCCTCTGTGGATGCAGTACCGAG
Seq A exon
GTAGGCTTTTTCTCTGGTCTGTGTATGTTTTCCAGTCATTCTGCTAGAAGAACGTGTCTGTGGCAACCAAATATTAGATCAGGCTGGCTAAAGGTTTCTGTGGGAGTGAAGCACGGTGTAAATGTGGAAGCATAAGACGAGGGTATTTAGGACTTTGTGCTGTTTGTTTTTCAGCATAATGCCTCTAAATTGGTGCATTTTAGCAGCTGATGGGAAGTTGTGCCATGTTTTTTCCAGTCTTGCTAATCCTTCGTTATTGTTGTTTCAACAG
Seq C2 exon
GGAAAACCATGAAACAGAGAAGCCAGCACTGAACAATATAGCGGACAATACAGTAGCAATGGAGGTGACGTAGTTTCCGTAGGAGTGGAACTGCAGCCTTGGGAACTTGTTTAGGTGCTATGCATCAGTAGCATTTTGAATGCAAGGGATGATGGAATGCCGCACATTGCGTTTCCATGGCAGCTGTGGGGACTTGACAGCAATGCACATCTCTCATGCTTTGGTTTTTCTTTTCTTACTGTTAATAGGAAAGAATCGACATCTGTAAATTAACAATACAGCAATTATCTGTACAGTACTGCATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007169:ENSGALT00000011610:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.285 A=NA C2=0.833
Domain overlap (PFAM):
C1:
PF067527=E_Pc_C=FE(52.4=100)
A:
NA
C2:
PF067527=E_Pc_C=PD(9.9=92.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCTGCCAATTCTGCAACA
R:
ACGGAAACTACGTCACCTCCA
Band lengths:
301-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]