GgaINT1015735 @ galGal4
Intron Retention
Gene
ENSGALG00000010214 | JADE1
Description
jade family PHD finger 1 [Source:HGNC Symbol;Acc:HGNC:30027]
Coordinates
chr4:34037414-34039693:+
Coord C1 exon
chr4:34037414-34037531
Coord A exon
chr4:34037532-34038391
Coord C2 exon
chr4:34038392-34039693
Length
860 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TAATTTGTTTTTACCTTTAGGTG
3' ss Score
10.73
Exon sequences
Seq C1 exon
GTGCGTAATCTCACTTACATGGTGACTCGAAGGGAAAAAATCAAGAGATCTGTTTGCAAAGTTCAAGAACAGATATTTAACATCTACGCAAAACAGTTGGAACAAGAAAGAGTTTCAG
Seq A exon
GTATGCTTCGGCATTGTCTTTTTCACATGACACCACAGGCATAGGCATTGAAATGTTTGGGTAGATTCTAACGACTGATTGTGAAGGACAAGCAAGACCTCATTTATTCTCGTTAGAATCGTATGTAGTCCACCATGCATCAGCAGATTGGAAGAAGATAAAAATTTGCATAGCTCCAATGGAGGGCACATTGGTATAGAAACTGGTAAGCCTGTGTTATCCTTGAAGCACTGAATGGCTTGCTGCTTCAGGTCCTGTCCGTTGTGATTCTTTAATGACTCCTTGTGACAGAGACCACGACTTAAAATTCAAGTGCCATATGGTATCTGCTAGCTTTATGTTTTATTAACATCACCGCATTAGTATTTAGTGTGTGTTTCTTTGCATTGTAGGGTAGTTTTGAAACATCGTACTTTTTCTGTGTAATCTCACAGAAAGTAGTCCTTCCTCCTAGAGGAGAAACTTCAGAGTTACTGTATTAACTCGGATTATCCTCAAAGTATTCAGTAACAAATTAATTTTAGACAGAATCAAGCCATCAGCGAGTCAATGTGATTATTTTACCCCACCTGAGGAGTTTCTACGTCTTAATGCACGTAACAGCACTAGGAATTGTATTTGCTACACGTATAATTGGATGTAGGATGGCTGCAGGGAAGTCAGCAACATCTGCAGTGTGTTGTGAAACCAGGACGTAGCCGCGTAGTCATGATGTAAAGGTGCTGGATAGGCAGCCAAATGCCCATTTACACTGAAGAAACCTGTCTGGCAGAAGTAGTTTTAAAATATGTACTACTTAAAAGCGGTATTTGTCCGGACATGGATTGCTTGACTTTAACCTAATTTGTTTTTACCTTTAG
Seq C2 exon
GTGTGCCTTCTTCATTCTCCACAATGGAAAACGCAGTGTTGTTCAATAGTCCATCTTTGGGTCCCAATGCCCCTAAGATAGAGGATTTGAAATGGCATTCAGCATTCTTCAGGAAACAAATGGGCACATCTCTGACACACTCTTTGAAAAAATCACACAAAAGAGACGGAGTAAGTAATAGCTCTGGGAACAGTAGCAAGTCCATGCTGAGGCAGCCCAGCCAAAGGGGAGATGGTGCAACTCCAGGAAGCTTGTTAAATTTTGACAAGAGCTTTGCAGAAACACGGATTGTATCAGCACAGCAGAAAAATGGCATAGTTATGCCAGACCACAGAAAAAGAAGAGACAATCTTCCACAGTGCGAGGTAATCAAGACAGAACTGAAGGAAAAAACTAAACATAACCACAAACCACTGAGACCCACGGAACTCTCTCAGAGGCAATCAGAAAACAAAAGGGCTGTGAACCACTCCAGTGGTAGGTCAGCGCCTGGCACACGGAGGGATATAGTGCCTAAATGCAATGGGGGTCTTGTCAAAATAAACTCCAATCAGACAGTAGTTAAAGTGCCTACGACACCCACGAGCCCAGTGAAAAACTGGGGCGGATTCCGAATTCCAAAGAAGGGGGAGAGGCAACAGCAAGGCGAGAGCCCAGAGGAGACCTGCCGCCAGAACTCCGGTTACCCCTACCTGGGCGTGGGCAGAGTTTCACCGAAGGATAGGGCAAAAAGCAAGCCGAAGCCTGACAGCGAGAATGATGGGTACATCCCTGATGCTGAAATGAGCGACTCAGAAAGCGAAGTAGCTGAAAAAAAGTGCAGACAGCAGAGGCTCAGCCCAAACAGCACTATCAGCAGAAGGACGGACATTATTAGGAGAAGCATCCTGGCATCCTGACCGGGCAATGGGGCACCGTGGTCAGTGGTCACTGCCTACAAACCAACTTCACTTTATTTATTGGTGTGAGAGGGGAGAGTTGTTAGACGTGGCTACAGAACGACAAATAGATAACCCATTATTCCTGAGCTGTATAAACATGTTTACATACACTTAAAGCTGGATTTTTTTGCCCCCTGGCCCATTCCGTGACAAGTTTGAATCTCCTTTATTTGCAGCTTCCCTGAGTAAGCAGAGAATTGGCATCACTACTAAAACAGGATTTGTGATGAACACTAAAGTAAGTCACAAAATCATCTAGGGGGCTAGGGTGGGTAGTGGGGAATTAGGCAGCATCATCCCTTTTCGCTAATCTGCACTGTTAAAATTCTCTTCCCTTCCCCTGCTTTCTGGAAAAGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010214:ENSGALT00000016607:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.833
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACATGGTGACTCGAAGGGAAA
R:
ACAAGCTTCCTGGAGTTGCAC
Band lengths:
357-1217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]