GgaINT0132397 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5852197-5854683:-
Coord C1 exon
chr19:5853867-5854683
Coord A exon
chr19:5852320-5853866
Coord C2 exon
chr19:5852197-5852319
Length
1547 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTGCACCATTTTCCCTGTAGATG
3' ss Score
9.65
Exon sequences
Seq C1 exon
TGGCTCTGTAGTGTTGTTGCGCTCCAGTGCAGCATATTGAAACATTTATCTGCTAAGCAGATGACTTCGCTTTGGGACTCTGAACAAACAGAGAAGGCTGATATTAAGCCTGTTATTGTGGCAGACGGCACGCTCGCCAACCCTTACCAGGCAGCTGACAAGGCACCCACACCTTCCCTCTATTCCATGTCATCCTGCACCTCAGGGATTACCACCCAGAATTCCTTGAGTTCCTCACAATCCCAGCAGACTTTGTCACAGGAAGATGTCAACTGCAGCTCCTGTCTGGATAAATCCAAGAAGGTGTCTTCTTGCGGGACTTCAAATGGGCCGACGGCCTCTGACGTTAAAGTAAATGGTCCTCATTTCTATGGCGTTTCATCCGAACCTTCAGCACAGTTGACTGACTCCCAGAGGCTGATTGGAGCTGGTAACACAATACCTGTTTTGTCTCATCGGCAAACGTGGCCCAGGCCCCTCACGCCCCCAGCGACTTGTGGACTTCTGAATCACACCATTGGAACCATTGTCAAAACGGAGAACGTAGGAGGACCCGTTTCTTGTGCACAAAGGGGTTCTGTGCCAGTCACAAGTATGCCTACTTCCATATCGAGCTCCTGTGCCAGCCTGGAGACCACCAGCACTTTGCAAAGGAAGAATGTGCAGACGCAGATAGGGCCGCCGCTGTCAGCAGACCTGCGATCCATGGGCTCTCCTCTGACTGCCACCAGGGCTCTCACCCCTCCCCAGGCTGCAGGAGATGGGATCTCGGCTGTTGGATCCGCAAACAGATTCTGTTCACCAGCACCACCTTCAG
Seq A exon
GTAAGTGCCCAGCAGCTGATCTTGGCCCCAGGGTGGGAGGCGTTCAGCTGAGTGCTGTTTCTGCACCCACAGGCTCTCATTGAAGGGGGAGTTTGGCTTTTCATGGAGAGCAGGGAGAAGGTTCTTAAGTCCTCCCCTGTCTTAGGTTCCTTCACAGGAACTGGGATGTGTGCACCTGAGAGCAGAGTTCTGTCCCCAGCATCAAGGCAGTGGATCGGTAGTTGAGCTCTGGGGAGCAGCAGTAGATTCCAATCCCCGGGCTGCTGCCTCCCTGCTCTGACAGCCGTCTGCTCCGATGCTGCTATAAAACTGCCAGTTGGTTTTAAAGCGCTGCTTGGATTGCCAGACAGGATTTTCCCAAACACCTCTCACCCTTCTGATGCTCTGCTTTGTGTTCTGATGATGGCTCTGTCCCCCCCCTCATACTAAGTCTGCAGCTGCACAGCTCTGATGTGCGGGAATGTGACTTGGGAAGAAGCTGTAGTGTGCTTTAGCCCCTGCCACTCTGCTCACACAGGGTAGCTATGAACTAGGTTCACCACTCTGTCCTGGGTTCTACCCTAAAATCTTGACGTTAAAGGGCACAAACCCATTCATCAATGTAAAAATATCGACTGAAAAACATGGGGAGCCGAGGGTATGAGAGTAACTGCTCTTAATTCCTCCATTTTTGCCAGAAGAAGCTTTCACTTTCCTTTTGCCTCTCCCCTACCAGCTCAACGCTCACACCGTCGGATCCTTTGTGCAGGTTGGGTTTGAAGCAAGCAGCAGAGCTGCCTGTCACTGCTCTCCTTGCAGCTGTAGCTGCTCGGTGTGGCTTTGGGTGGAGTGCAACGGAGGCAGAGCATCTTCTTATTGTTCTTAAAATTCCTCTTGAGTAACTTCCGAGCTTCAGCTTGTGCCTGGGAGCAGCTCCCAGAGCAGCTGGCCTCCCTGCCTATTGCTGAACCAACACAGTCGTTCTGGGGCTGCTGGTCTGTGCCCTGCTTGGAAATGCAAGGCTGGGAGGCCTTTAGGTGCTGCAGGGTGATGTTGTGAATGAGTTCTGCCCCTGACTGTCACATTCTTAGCAGTGAGCCGCACCCCGGGGTTGGTAATTGCACAGAAATCAAAAGGTTGAGGTAAACGTGTCCAGGTCTGAACACGCATTAAAAACAAGCTGCTTAGCAAAGTGCTGCAAGGTTTAGCAAGCTGTTTCAGCTCTGGGGGCTCAGTGCTTATCGTCCAGTGTCTGTAGAACGACATCGCTTCTGTCTCTCATTGCTTCTTTGATCGAGGAGAGGGGGGCTCGGGTTTTTTTAAGTGCAGAATTCCTCCAGAACTGAAGGAGACAGAGGCTGAGGGCCGGTGCTGTGGTCCAGGCACACACTGACCTTCGTGTGAGGGGCAGAAAGCTTGTGGTCTCTAATTGGGGCCCATTTCAAAGCATGGCTCTGTGCAGAATTAGTCACTCAGAGCAGCGTGGAAGCCAGGAGCAGCCCGAGGGCTGGGCACGTGTCTCACGGACGTCGTGGTGACATATCTTCTCTGCACCATTTTCCCTGTAG
Seq C2 exon
ATGGTAAGGTCAGCCCCAGCACCTTATCCATAGGAAGCGCTTTAACTCTACCCTCATCGCTCACTTCAAACTCTGCAGCTATGTTGGACCTCACCAGTTCCCTGAAAGCGTTTATGGATGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.511 A=NA C2=0.214
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCACAAAGGGGTTCTGTG
R:
GGTGAGGTCCAACATAGCTGC
Band lengths:
351-1898
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]