GgaINT0070281 @ galGal3
Intron Retention
Gene
ENSGALG00000010214 | PHF17
Description
NA
Coordinates
chr4:35736148-35737999:+
Coord C1 exon
chr4:35736148-35736265
Coord A exon
chr4:35736266-35737119
Coord C2 exon
chr4:35737120-35737999
Length
854 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TTAACCTAATTTGTTTTTACCTT
3' ss Score
-0.55
Exon sequences
Seq C1 exon
GTGCGTAATCTCACTTACATGGTGACTCGAAGGGAAAAAATCAAGAGATCTGTTTGCAAAGTTCAAGAACAGATATTTAACATCTACGCAAAACAGTTGGAACAAGAAAGAGTTTCAG
Seq A exon
GTATGCTTCGGCATTGTCTTTTTCACATGACACCACAGGCATAGGCATTGAAATGTTTGGGTAGATTCTAACGACTGATTGTGAAGGACAAGCAAGACCTCATTTATTCTCGTTAGAATCGTATGTAGTCCACCATGCATCAGCAGATTGGAAGAAGATAAAAATTTGCATAGCTCCAATGGAGGGCACATTGGTATAGAAACTGGTAAGCCTGTGTTATCCTTGAAGCACTGAATGGCTTGCTGCTTCAGGTCCTGTCCGTTGTGATTCTTTAATGACTCCTTGTGACAGAGACCACGACTTAAAATTCAAGTGCCATATGGTATCTGCTAGCTTTATGTTTTATTAACATCACCGCATTAGTATTTAGTGTGTGTTTCTTTGCATTGTAGGGTAGTTTTGAAACATCGTACTTTTTCTGTGTAATCTCACAGAAAGTAGTCCTTCCTCCTAGAGGAGAAACTTCAGAGTTACTGTATTAACTCGGATTATCCTCAAAGTATTCAGTAACAAATTAATTTTAGACAGAATCAAGCCATCAGCGAGTCAATGTGATTATTTTACCCCACCTGAGGAGTTTCTACGTCTTAATGCACGTAACAGCACTAGGAATTGTATTTGCTACACGTATAATTGGATGTAGGATGGCTGCAGGGAAGTCAGCAACATCTGCAGTGTGTTGTGAAACCAGGACGTAGCCGCGTAGTCATGATGTAAAGGTGCTGGATAGGCAGCCAAATGCCCATTTACACTGAAGAAACCTGTCTGGCAGAAGTAGTTTTAAAATATGTACTACTTAAAAGCGGTATTTGTCCGGACATGGATTGCTTGACTTTAACCTAATTTGTTTTTAC
Seq C2 exon
CTTTAGGTGTGCCTTCTTCATTCTCCACAATGGAAAACGCAGTGTTGTTCAATAGTCCATCTTTGGGTCCCAATGCCCCTAAGATAGAGGATTTGAAATGGCATTCAGCATTTTTCAGGAAACAAATGGGCACATCTTTGACACACTTTTTGAAAAAATCACACAAAAGAGACGGAGTAAGTAATAGCTTTGGGAACAGTAGCAAGTCCATGCTGAGGCAGCCCAGCCAAAGGGGAGATGGTGCAACTCCAGGAAGCTTGTTAAATTTTGACAAGAGCTTTGCAGAAACACGGATTGTATCAGCACAGCAGAAAAATGGCATAGTTATGCCAGACCACAGAAAAAGAAGAGACAATCTTCCACAGTGCGAGGTAATCAAGACAGAACTGAAGGAAAAAACTAAACATAACCACAAACCACTGAGACCCACGGAACTCTCTCAGAGGCAATCAGAAAACAAAAGGGCTGTGAACCACTCCAGTGGCAGGTCAGCGCCTGGCACACGGAGGGATATAGTGCCTAAATGCAATGGGGGTCTTGTCAAAATAAACTCCAATCAGACAGTAATTAAAGTGCCTACGACACCCACGAGCCCAGTGAAAAACTGGGGCGGATTCCGAATTCCAAAGAAGGGGGAGAGGCAACAGCAAGGCGAGAGCCCAGAGGAGACCTGCCGCCAGAACTCCGGTTACCCCTACCTGGGCGTGGGCAGAGTTTCACCACAGGATAGGGCAAAAAGCAAGCCGAAGCCTGACAGCGAGAATGATGGGTACTTCCCTGATGCTGAAGTGAGCGACTCAGAAAGCGAAGTAGCTGAAAAAAAGTGCAGACAGCACAGGATCAGCCACAAACAGCACTATCTGCTGAAGGACCGACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010214:ENSGALT00000016607:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.765
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGGTGACTCGAAGGGAAA
R:
AGTTGCACCATCTCCCCTTTG
Band lengths:
350-1204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]