RnoINT0023698 @ rn6
Intron Retention
Gene
ENSRNOG00000034200 | Atp8a1
Description
ATPase phospholipid transporting 8A1 [Source:RGD Symbol;Acc:1309619]
Coordinates
chr14:42053649-42055830:+
Coord C1 exon
chr14:42053649-42053814
Coord A exon
chr14:42053815-42055702
Coord C2 exon
chr14:42055703-42055830
Length
1888 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGC
5' ss Score
4.2
3' ss Seq
CTCTCCCTCCTCCCCAACAGATG
3' ss Score
11.16
Exon sequences
Seq C1 exon
AATTCCACAAGTCCACCGCTTAAACTCTCCAATGTGGAGCGGATTACAAATGTGCAAATTCTGATTTTATTCTGCATCTTAATCGCCATGTCTCTTGTGTGCTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCTGGGAAAGACTGGTATCTCCATCTACACT
Seq A exon
GTGAGCAATGAAGGCTGACTTGCTTGTTTTCCCCCCCTTTGAGATATACATTTGCTTCGCAGTCAATCTTAATTTAGTTTGCAGAATATCCCATTGTTTCTGAAAGGGAAACTTGTGGCTAAGATAGCTGGAGGTCTTATCTTTATTTTTTTAAATAGATTTCCAGGAAAAGCAAGTAAAATTTAGGTTCTCCGAGCTTCAGAATACTTAAAAACTTAAAAACCCACCTCCATTTCATAGTACTATAAAGTGCTCAATAAATATAACCATTAACATGATATACAAAATAAAAACTGCCCTCTAAAGTTTATTAAATGTGGCAGTTAAACTCATAAAAGGAGATTATGTGTAGAGGAAAATGAGTATTGAATATATTATGGAAATATATTACATGCTTTAAAATGTTTGGACTGTCCTCTTCCTTCCTCTTCCCTTCGTCCTTTCTTCCTTCCTTTCTTTTGCTTTTTTTTTTTTTAAATGTGCTTCCTTTGAACTCAGTAACAGAAGTCTTATGTAAATGCTTATCTTGTCCCAGGGAGAGTAGTTTTAAATCACTTCCGTCTACAACACGTAGTCTACAACACGTATTCATTCTCTTGCTGTTCTTATATTAATGTATTCCCTCTAGGACTTTCTAGGAAGTGAGTTTCTATTTCCTTGTGATGAATACTTAGCCAATAAATATTTAATTTCCCCAAAGTGTGTGAAAACAAATTCCAGTACAATCGTACAGAAACAAAACCAAACAAACAAAATATAGATTTCAAAAGCTGTTTTTATTACATTTAACTTTTTATTATATTTAAGGTTTTTATGGTCATGATTTATTACTACAGCATGAGAAAGTTATTACTGTGATCAATTTGCTTGTGTATATCCATATCCTTTTACAGTGCATTGGGTTTCCCTGTTTTATTTTTTTACTGAAGAGAATGTTAATTTACCTAGGAGAATAATTTACCTACAGATAAAAGTCTCCTGTAGCTAAGGATGGCTCAGTGTAGTGCTTACTGGCTTATAAGCAAGGACTTCCAGAGCCCAGCACTGGAAAAATTAGAAGTATTCTTACAATTCAGGTCGCTCTAGCTGCTATTGTTTGCTTTGAAACCCTACTTTAGTTTGAAAATACTTAAAAGAATTCACATACAAGCGGTTGTGCCCACCTGAAGATTTGCATTTACAAACTGTCAACCTTCCTAACAGCTGAGCTTCCTGATTGGAACAGGATTTGCAATGCCAATAAGGACAGCACTCTCCCCATCCCCAAAAGAAGGTTTCTCCAAGTATCCCTGCCTCTCCTGGCGCTCCCTCTCTAGAATGGCCTCAACTGAATCTGCTTCTGCCTCCCTAGTTATGAGATTAAAGACATGTGCCACAACACCCTGATCCTTCTACTTTTTAATATCACCGTGGAGATTCTGATAGGATTAATGGATCCAGTGGAGTTTGGCTCTAGGACATCAGGAGACGACCGTAACCCAGCAGACACCCAACCCTTTTTACTTTAAATGACCTAGTATTCGTACTATGTATATTTTGTCATATACTGTACATCCTATCAAGGTTAATTAATATGCATGTACAAAAAATATGCTGTGTAAGTGGTTATTACACTGTATTATGTAAGGAATAGTAAATCTACACATATTCAGTACACAGAGTATTTTCAATGTAGAGTTGGTTGAATCCCTGGTGTGGGACCTTAGAGGGGGATAGGACAGGACTGTGACTCTCTGTCGAAGGAGGTGTTTGAGAATCAAGATTTATATTAGAAGCAAGGTCGTTTGTCTAGATTTGTTATGTAACATAGTAGCTGTGGTCAGTCACACTCAGCTTTGCTCACTGTAGCTGTAGAGCTGTGAATGACGCTCTCCCTCCTCCCCAACAG
Seq C2 exon
ATGGTGGCGCTAGTAATTTTGGGCTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATCCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAATTTACCCAGGCATACTTCATAAATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034200:ENSRNOT00000044017:6
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:
PF0012215=E1-E2_ATPase=FE(27.0=100)
A:
NA
C2:
PF0012215=E1-E2_ATPase=PD(20.1=95.3)
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:
AATTCCACAAGTCCACCGCTT
R:
CCAATTTATGAAGTATGCCTGGGT
Band lengths:
294-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]