GgaINT0135998 @ galGal3
Intron Retention
Gene
ENSGALG00000003709 | E1C209_CHICK
Description
NA
Coordinates
chr22:2758566-2760197:-
Coord C1 exon
chr22:2760049-2760197
Coord A exon
chr22:2759273-2760048
Coord C2 exon
chr22:2758566-2759272
Length
776 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
AACCTGCTACTTTTCTGCAGGGT
3' ss Score
8.24
Exon sequences
Seq C1 exon
TTTCTCCCTTTTATTCAGAGCACCTGAAGGTAGGCCACGTCAGACTATTTCCAGCCAGTCGGTGCACCACACAGCATCTACACAACCGGACAGTTACAGACAACATGTTATGTGCAGGAGACACAAGGCACCTTGATGATGCTTGTAAG
Seq A exon
GTAAACCCAGTTTTATTCTTTTTTTTTTTTCTAGGTCTGTTCTTGATAATCTAAATTAACTAAAGAGAAATTTTCATAAAAAATCATTTAAAGGAGCCCTGCATCTGACTACATGGAAATTCTAGAGAACTTCTGTTTCACAGAACTTAACTGTTGGGTCTACTTTTTTTAATTCCCTCTCCACCTTTTCCTCATAGCTAGGAATGCAGGCTACATTCAGTCAAGCAAACCAGAATACAGACTGAAAATTCTAAATACAGGAAATACCACAAAACTGAGCAGGAAACCCCACCTCAGCAGTTTCCTATTATTTTCTATTCTGTAAGCAAGCACACCTAAATAAATATCAGCACCTTTTCAGTTTCATTATCTCTTCAATAATCATACTTTACTCACAATAGTATAAAGCAGCTTGGACCTTTAGAGTTTGAACAAAAGTATTTGTCTCATTCTTAACAAAAATGCCTCATATTTCATAAATGTGTGCTACACAAGGGTAGACACCTTAGTTTTAGGCTACTTGGTGTCTCTCCTCTGGTATGAGAGGAGCACTAAGGAATTCTGTCTGAAACACAGAACATGCTAATGTGAAGGTGCTGTTACTAAGAGCACTGGAAGCATGGTGTCCCTGATTTGTTGGTAAGCTACACAGAGTATTTAAGGAGACTTGAGAAATGGCATCTAATGTACCATTATGGCCACTGAATAGGGAAAGAGTACAAAACATACACATACGCAAAAAAGGAGTTTCTTACTAACCTGCTACTTTTCTGCAG
Seq C2 exon
GGTGACTCTGGAGGGCCTTTGGTTTGCATGAAGGATGATCGCATGCATCTAATAGGAATCATCAGCTGGGGAATAGGCTGCGGCCACAAAGGCATACCTGGTGTTTATACAAATGTGAACCGTTATCTTAACTGGATTCAGAACAACATGAAACCCTGAAGAAGAAAGTACCTCTCCACACACAATCCCATGAGTGTGCCCTTACAACTTGCTTTGAGGTGTTTCAAGGATATTGACAGGGCATCCTATCTGTCCAGATGCTTATGACTTTCAGTATAAAAGGAAGACATACTACTGTGTGTGGTATGGGCAATTTCTCTGAGTACTCCACTTTTCTCACTTCAGGTTATCACAATCTAAGAGCTCTTTCCCTATGCATCTCCAAATTTTCTCCTTTAATCAAATCACACGGGTAGAACTAAAACTAAATCTTGGCTTGCAAAATGTGAGCTATGTTGTTTTGGACTTAAGGCAAAGGAGACAGATTTTGTTTCCTTAAACTTTCATCTCCCTCTTTAGATCACCAAGACTCAAGAGACACACGGACTTGTGCCTTCTCTAACACAGCCCTATGGCATACCTAAACAATCCCCTTTGTGAAATACGTTCATTATTCAAATTTATTCCCACAAACCCCTTCCTCACCCCTCCTCTTTGGAGTAATATTCTTTTCTAGCTTTTAAGCCATGAGACAAACATCTCCCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003709:ENSGALT00000005886:12
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(20.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.8=84.9)
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:
GCACCACACAGCATCTACACA
R:
TGGACAGATAGGATGCCCTGT
Band lengths:
342-1118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]