GgaINT0020356 @ galGal3
Intron Retention
Gene
ENSGALG00000006937 | P4HTM
Description
NA
Coordinates
chr12:11929421-11931312:-
Coord C1 exon
chr12:11931150-11931312
Coord A exon
chr12:11929607-11931149
Coord C2 exon
chr12:11929421-11929606
Length
1543 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTGCTGTGCTGTCTCCCCAGGGT
3' ss Score
10.89
Exon sequences
Seq C1 exon
GCGTGCTGAGTTTGGAGGAGTTCAAGAGACTGAACATCCGTGACTTCCACAAGTACATGGGGAGCCAGAAAGTGAAGATGAGTGACGCGGTGCGCAACAGCCAGCACACGTGGCTGTACCAGGGCGAGGGCGCACACCAGGTCATGAGAGCCATACGGCAGAG
Seq A exon
GTGAGGGCTGAGGGGGTGTGGGCACGTGGGCCACCTGTGCTGGGAGATGCAGATGCGGACATGCTAATATTCACACTTCCTAATTGTGTGGAATTTTGGAGTATGAAGAGCAATGAGCGCAGTCGTGAAATGGGGAGAGGAGGTTTTCGTTAGAACGAGGAATTGTATTGTCCCCCGGAAAAGGAAAAAGAAAAATCAAACCTCTCAGCGTAGCCATTCACTTTTGGGAACAGCCCTGTAAAACCAAGAAGACTTGGCATTATATGAAATAATTCATTCTAATTAGTAAACGAGCTTACTGGGAGAAACTGCCCGTTTCCAACCCTGTCTGGGTGCCAGTAGTTACTGTCAATTGCTTGAGTTACTCATGCATTTCACTGACATCTGTCGTAGCTGTTCAGAGCTAACTTCATAATAAGCACAACTTTATCTCGAGCACACTGAGGTAGTTTGGTCATCGGAGCGCATGACCGCGGGGCCTGTCCCAGCACATGGGAGAACCTCCTGTCTTTCCCTTCACCTTGGTTTTGGTACTGGGAAGAGTTAACCCAGCTCGCAGGCCAAATGGCTTAGCCGTGGTGAGTTTCAGATAATTGGCTGGAGACTCCTCGTTCTTGTGGTGCTGGTCCTCACCCAGGACATGGGTGGGGAAAATCTATCCCGAGGCTGGAAAACGGCTGCTGGCCACTCCTTTTCTTCAGCACATTCCAGAGGGAGAATGGGGTCGCATATTGCCTTAATTAGAGCAGACTGAGGCTGCCACTTTCTCTGTGCCAGCTCGCTGGCTCACGCAGGCATCGGCACTCTTCGGTTTGCCAGCATTAGAAAGCCCCTGCGGACCTGGAGGCGTGGTGCCGAAGGAGGCTGTAATCCCCAGTGGGATCCTGTGGGGCCTGGAGGAGCTCTGCCACCCTGCCTTGGTGCCACGTTCCCCTCGGGCTTCACCGCTCGGAATTCCCAGAGCTCTGAGTGTTCCTTGGCAGGTCTTGAGAGGTACCTGCTTGCCTTGGGGATGAGCTCAGACGTAGCAGTGGAAAAAACCCAGAGCCCTCTGTGCCCCTCTCCCCAGGGGGGAGGCTGTTGAAAGGCAACAGGGAAAGGTGAGTTAGGTGATGAGAATATCCCTAGAGCTAGTCTCTCGTTCACTCTCAGCAGGGGCCCTGTGCTTTGCTAACTGTCCCCGAGGTCTGTAGCTGGTGTGCAGGAGTCCAGAGAAGCGCTGAGATGGCACATGAAGGCTCCAGGGACACCCACAGGAGGGATCTTTCTGAGCAAGCAAGGTCTTCATGAGAGCAGTCCTGCTGGAGATGCGCCCTTCGTTTTTGTTTTTTTGTTAACCTTGAGGAGGAGTTTCTGAGCTGATGCTGATGGTCTGACAGATCTGTAAGGAACCTGGTTATCTCTTGGCATGCTTGCTGCAGCCCATCCGTCTCTCCGGTCTTTTGGGGAAGGGGGTTCTCTTTCTCTGGATGTATTCGGTGCTGGGAGTAGCGGCTGTCCTGGTGGAGATGTCTTCCCCTTACCTGCTGTGCTGTCTCCCCAG
Seq C2 exon
GGTAATGCGCCTGACTCGCCTGCCCCCAGAGATTGTGGAGCACAGTGAGCCCCTGCAGGTGGTGCGCTATGACCAGGGGGGCCACTACCATGCCCACATGGACAGCGGCCCCGTCTTCCCCGAGACCGCCTGCAGCCACACCAAGCTGGTTGCCAACGAAAGCGCTCCCTTCGAGACCTCATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006937:ENSGALT00000011237:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(10.5=20.0)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
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:
CGTGCTGAGTTTGGAGGAGTT
R:
CGACATGAGGTCTCGAAGGGA
Band lengths:
348-1891
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]