GgaINT0094790 @ galGal3
Intron Retention
Gene
ENSGALG00000011262 | KCNH8
Description
NA
Coordinates
chr2:35614191-35616589:+
Coord C1 exon
chr2:35614191-35614390
Coord A exon
chr2:35614391-35616339
Coord C2 exon
chr2:35616340-35616589
Length
1949 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
TTTTCTCTTTTTTTTGACAGCTT
3' ss Score
9.89
Exon sequences
Seq C1 exon
CTCTGATGCATGCCTTGGTGTTTGGTAATGTGACTGCCATAATTCAGAGGATGTACTCCAGATGGTCCCTTTATCACACAAGAACCAAGGATCTGAAGGACTTTATACGGGTCCACCACCTGCCACAGCAGCTAAAGCAAAGGATGCTTGAATATTTCCAAACCACATGGTCTGTCAACAATGGAATTGATTCCAATGAG
Seq A exon
GTAACCAAATGATAATGTTTGTATTTTATAGTTTTCACTGTTGATTTGGAATTAAGGAGGGGAGTAATTTTCTATTTGAGTTGCTGTGTTTTGTGTGATATTACATATGAAAGACAACATTCCTAAAATTAAAGCTGTGCTATTCCAGGAGGGATATGCTATTAAAGAATTTGTTTTGGAACATACATATTAAAAATTCAGAGTCCTTCATAATTCAGAACTGTTGAAAAGACCTTCATCAGAAAACTTTTGGATGGTGCCAGAAACACCACACTGAATACTTTGCTTTCATCAAACACACAGAAAAAATCTACTGTTTTTTCCTGCTTGTTTGTTTGTTTTTACTTTTTTAGTCTTCATTCCTCCCCCCTTCATTTTCTTTTATTCTCTGTATTACTGTAAATAAGTGGTTAGTCCTGGAAGATATTGTAAGAATGCTGAGGTTATTAATTTCCCTGTTCTTAAATACTGATAAATTTGCAGAAAATTATGTGAGATTAAAAACAAAGGACATACTTCCAGTTATGTCTTTATTCTTTCACTGGAGTGTGATTTGAGTGAATCATTCCTTTCAGAGCCATTGTAATATCTGTCATTATAAAACTAAGTGGCTTCTAAAGATAATGTGGACACAAGTAAAAATATTTGGGGTTAAGAATATTCTTTTCATGTGCACAATAAAAAGGATGAGATTTTCAACACCATCTTAGCAACAGGAGCATAGCAAGATTTTTAAAGATATCACTCCAAAAATAGTGTCTCCCATCTGTTTTCCTAGAAAGTACAAAAGATACAAAGAGCACAAAACATTATTTTATAGAGCAAACTATCAGCTACAGAACATTATTTTTTGACATATGCACCACCATTAGCTATGCATTTTTGCCAGTGTTGAACAAGAGCCTACGTACTGTGCTCATAAACATTTGCACCAGTGGAAGTGACCCACTGTCACTGCTACCACTGCTGAAACACACTACCTATTGCCTCACTGCACTCACACCTACTGTTTGCTCTCCATAAACATTCAGCAAGTGTTGGTGAATGTCAGTGGGTACCATTTTTTCCACATGGATGAATTCAATGCCACACCTTTGCTTCATCCACACTTCCATGTCAGACACCATTCTGTCAGACTGCCTCTCTGTTGCCATCTGTTGCACGGCAACAAAATGTGACAGAATATTGTTAAGAAGGTGTTTTTCTTAATTTTGCCGTCTTCTCATCTTCCAACAGATGTTTTTAAAAAACATATATAGATAGAAATCATTAACTTTTGGCCAAGTTAAAATTGGAATATGCAGAGAAGTAAAACAAAGTAAGACCATGTGATATTGTTTGTAGTTTCCATAGATTATTCCACTGAATATACACTTTGTCAATATGCTTTCTCTCTCTTTTGGTATACAATCATAGTATCCCAAAAAATAACAGAATATTTAAAAAAAAAAATTGCTTGGAAGCATTGAAAACTCTATAGAGTTTTTTCTGAGTTTTCCTCTTCCAGTGGTTTTACCATAAAAGAGACAATATAACCTGTTCATGACTTTTGTGCAATCTTTTTAGAGAAAACCTAAACTAAGTTCACTTTGGCTAGCGTACATTAATGTATATGCCCAAAGAGAATACTGTGTTCTAAAAAACGAGATGAAGTCAGACAAGATTAAATTGTGCTTTTGTGTGCAAATTATGCATCTTATGCAAAGATTTTTTTCATAAAGCCATATTTTTATTCATATTTTTCCAGGACTTTATGAGTGTTTGTCGGTGTAACAATTTATTAAGACATAGTGCATGTATCTTATCAAACAAGATATGAAAAATATGAAAGGAAGATCTTTGCCTCAATATGACGTGCAGTAATACTAAATTAGACAAATCCTGCAAAGAAAAAACAAATTATTTTGCATTTTTTCTCTTTTTCACTCTTTTTCTCTTTTTTTTGACAG
Seq C2 exon
CTTTTAAAAGATTTCCCAGATGAGCTACGTTCAGACATCACCATGCACTTGAACAAAGAGATTTTGCAGCTCTCCCTTTTTGAGTGTGCCAGCCGTGGTTGCCTCAGGTCTCTGTCTCTGCATATCAAAACCTCCTTCTGTGCTCCTGGGGAATACCTCCTCCGGCAGGGAGATGCCCTGCAAGCGATATACTTTGTGTGCTCAGGTTCCATGGAAGTCCTAAAGGACAGCACAGTGCTGGCAATTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011262:ENSGALT00000018380:9
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=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.7=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(45.5=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGATGCATGCCTTGGTGT
R:
GGTATTCCCCAGGAGCACAGA
Band lengths:
357-2306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]