GgaINT0007247 @ galGal3
Intron Retention
Gene
ENSGALG00000021139 | LAC_CHICK
Description
NA
Coordinates
chr15:8172121-8174414:-
Coord C1 exon
chr15:8174380-8174414
Coord A exon
chr15:8172642-8174379
Coord C2 exon
chr15:8172121-8172641
Length
1738 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
GCTCTGCCTCTCTCTTGCAGGCC
3' ss Score
12.55
Exon sequences
Seq C1 exon
TATATTTGGGGCCGGGACAACCCTGACCGTCCTAG
Seq A exon
GTGAGTCGCTGACCTCGTCTCGGTCTTTCTTCCCCCATCGTGAAATTGTGACATTTTGTCGATTTTTGGTGATTTGGGGGTTTTTCTTGGACTTGGCGGCAGGCTGGGGTCTGCCACCGGCGCAGGGCCGGGCACTCAGCGCGGCAGCCTGGGCTGAGTCTTGTCCCCACCGAGCCGGAGGGCTCCGGTGTGCGCCATGGAGGACTTAGGGTTATTTTGTCAATGGAAAGTTCTTAAAATTTGACCAGAAAATGTGCCCGAGGTCTGTCTCTGCCACACGATTTCAGAAATTGTGTCTAGGTCGATGAGAAGACAGTTTTTGTCTTTGTCAGGAAATTAGTTGTGAGTTGTTAGTCCTTCCCTCTTAGTCCTAAGGACTAAGACCTTTGTCCCCGGTCTGGTCTCTCACTGGGGACTCTTGGCTCCAGTGCCATGGGGAGCCCAAGTGTCACTGACACGGTGTCCTTGGGGGTGAAATTCAGTTTTTCAGCTGTCCAGGTAAGTGCTGTCAAAAAATGGAGGTTATTCTGCTGAAAAAGCTGAGAGGAATATTTTGTCATTTTTTTCGGAAATATATATATATATATATATATAAATATATAAATTATTTATATATTTTATATATATATATATATAAAATATATGTATTTCTCTCTTTCTTTTTATATATATATATAAATATATATATATTTCTCCCTCTTTCTTTATATATATTTATAGGGAGAGAATCTATATTTTTGGCCAATTTGGCCAATTTCTCTCTCTCTCTCTTTATATATATATATATATATATATGTAATTTATATATATATATATAAATTTATATTTATTTATTTATTTATTTATATAGATTATTTTTATATACATATATATATATAAATTTGGCCAATTTAGAAGAAATTGGCCAAAAAAACCCAATCTGAACCAAATTACTTAGGGCATAAGTCCAAAAAAAAAGTGCAGTTCAAGAATTCCTCGCTGGAAAGTTTTTAATGGGGGCAGTTCTTCCCCATTTTCTGGTGTAGATATGAGTGAAGATATAGATATGTATGTAGATATAGATTTGGCTATAGTTTGTTTGATGAACAGTCTGAGGAAGAGTAAATCTTGCCTTCCTCATGGCAATTTTTAATTCTACTTCTTCTGAGACAAGTCTGAACATGCCTTGAGGTAGAAAGAGCCCGAAAATTGAGTGCTTTTTCTTTGAAATTTTAATTAAAATTAAAAAATAGCCTTACAGCAGGAAAGAAAGGGGGTGATGGCAGCTAATCGGAGTTCCAAAGCTGAACCACGTTCACCCAAACACGTGGTTGAAATTTTGTGTGTGTATATATATAAATATATATATGTATACAAAAGAAAATGCCTATATATAAAAAAATTGTTATGTATATTATATAGATTTATTATAGATATGTACATAAGATATAACACGTATACATATATATGTAGTCTGCTGTATGCTTTGTATAAATTTTTATAGATATGATGTATATTATATGCATGGGTTATATATCTATAATATATTTTATCTGTAGAAGGAACTACAGTATAAAATGCATATATGCGTATATATACACATATTTATATATATGTGTATATATATGTATACGCACACGTATAACATCCATGAAAATAGATATGGATGGGTGGATGTGTTTGTTTTACAGAGGTGCATGTGTGTCTGTACATACACAGCCATACATACGCGTGTGGCCGCTCTGCCTCTCTCTTGCAG
Seq C2 exon
GCCAGCCCAAGGTGGCCCCCACCATCACCCTCTTCCCACCGTCAAAGGAGGAGCTGAACGAAGCCACCAAGGCCACCCTGGTGTGCCTGATAAACGACTTCTACCCCAGCCCAGTGACTGTGGATTGGGTGATCGATGGCTCCACCCGCTCTGGCGAGACCACAGCACCACAGCGGCAGAGCAACAGCCAGTATATGGCCAGCAGCTACCTGTCACTGTCTGCCAGCGACTGGTCAAGCCACGAGACCTACACCTGCAGGGTCACACACAACGGCACCTCTATCACGAAGACCCTGAAGAGGTCCGAGTGCTAATAGTCCCACTGGGGATGCAATGTGAGGACAGTGGTTCCTCACCCTCCCTGTCCCTCTGGGCCGCTGCTGGTGGCAGCAGCCCTCACTTCCCACTCAGATGTCCCCCACCGTGCCCCCATCACCCACCTCTGCCTGTCGACTCCTCTTGCCCTCATCTCTCCAGGTGTCACATTAATAAACACGACACTGAACTAGTGCTGACTCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021139:ENSGALT00000034023:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.202
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(9.4=76.9)
A:
NA
C2:
PF0765410=C1-set=WD(100=81.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATATTTGGGGCCGGGACAAC
R:
TAGCACTCGGACCTCTTCAGG
Band lengths:
348-2086
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]