GgaINT0124642 @ galGal3
Intron Retention
Gene
ENSGALG00000008932 | F1NV62_CHICK
Description
NA
Coordinates
chr17:1308598-1309798:-
Coord C1 exon
chr17:1309664-1309798
Coord A exon
chr17:1309053-1309663
Coord C2 exon
chr17:1308598-1309052
Length
611 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CCCGTGTTCTGTCATCTCAGGCA
3' ss Score
7.62
Exon sequences
Seq C1 exon
CTGGTGGAGACCTTCCCACAGAATAAGGAGCACCTACACACATACTGCGTGGTGGGACTTTACATCTTGACACTGCTGGTCGATGGCTATAAGTTTGATGAGCACACGTGGAGCAACATCCACTTCAGCCAGAAG
Seq A exon
GTAAAAAAAAAAGCCCTGTGGGGCAGTGGGAACAGGCAGGCAGCTGTGGCCACATCCTTGCACTGGCCCAAGGACACAATGCTTTGCAGTGGGGCTGGACTTGATCTCTGCAATCCCTACAATTCTGTGATTCTGTGATTCAGGAGCACCATCCCTGGAATCTCCTGGACCAGAAATGTGTCCTTGCCTCATGCCTGTCATCTGGGGATCCCAGTACAGCTTCAGTCCTGCCTGCCCCCAAACCACTGACCCCAGCTCTTATGCATTCTGGTGGAAAAAAGCTAATTTTAAGGAAGTGAGAGAAGTGCAGCCACTTTGATCACTAATGCTGTGCTGAATTCACATAAGCATCAGGGAAGTGATGGTGGCTCCATAAGCCACGTGAATGAGAATGTGATCAAATTTGAAGGATTTTAAGGGGAGGAAGACACGGGTCACAGAGGCACATCTGCACAACAGCAGCTGCCCTTTAAGCCCTTGGGAAAGGGGAGAACAAAGCTGTCTGTGTAACTGGCACTGTTAGGACCAGGTTTGCCACAGTCCCTTGCACCAAAGCCACCACTGCCCAGGAGAGGCACTTTCTGATGATCTCCCGTGTTCTGTCATCTCAG
Seq C2 exon
GCAGGAAACGCAGACATTGGCTGGACACTGGGCTTCATGCTGAACCTCACCAACATGATCCCCACGGAGGCTCTGGAACACGTCAAGGGGCAGCAGCCCAGTCTGTGGGCAGGTGCCATCTCCTTCATTGTGCTGGCCATAGTTGCAGGCCTGGTGGCAATTCTCCTCCAGTGTTTCTGGAAATCCAAGTAGCTCCAGGTATCAAGCCTAGGGGCACCCTGCCTTCTAAACCAGGCAGGGAAAGTGGTGCAAGAAAAGGTGGAAGCAAGAGAGGGAAGAAGGCATTAAGCCCCACCTCCACTGCTCATGAAGTCTTCTTGAACCACGTCTGTAAAGACATCACAGGCATCTTGAGCTCCCGACAAACCTCCAGAAGGAAGATGCCAGAAACCTCTTAGATCTGGCTGACAAAGGCCAAACTGAGATGCGGCGGCCATATAAATTCAAGCTAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008932:ENSGALT00000014518:7
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:
PF0115012=GDA1_CD39=FE(10.3=100)
A:
NA
C2:
PF0115012=GDA1_CD39=PD(7.1=46.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGACACTGCTGGTCGATGG
R:
TGCCTTCTTCCCTCTCTTGCT
Band lengths:
354-965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]