RnoINT0109582 @ rn6
Intron Retention
Gene
ENSRNOG00000013972 | Pef1
Description
penta-EF hand domain containing 1 [Source:RGD Symbol;Acc:1359536]
Coordinates
chr5:148337037-148341062:+
Coord C1 exon
chr5:148337037-148337334
Coord A exon
chr5:148337335-148340906
Coord C2 exon
chr5:148340907-148341062
Length
3572 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GTTCACATCCCTTTCTCCAGGTG
3' ss Score
8.87
Exon sequences
Seq C1 exon
AGTTACCCAGGAGCTGCAGGACAGGTACCTGGACCACACCCCGGTGGCTACTATCCTGGACCTCCCCATGGTGGGGGCCAGTATGGCAGTGGATTCCCCCCTGGTGGTTACGGAGCTCCTGCCCCTGGAGGACCCTATGGCTACCCCAGTGCTGGAGGAACCCCCTCTGGAACTCCAGGCGGACCATATGGCGGTGGACCTCCAGGAGGCCCCTATGGTGGTGGACCTCCAGGAGGCCCCTATGGTCAGGCACATCCAAGTCCCTATGGTACCCAGCCGCCTGGACCTTATGGACAGG
Seq A exon
GTAAGTAGAATCTCCAGCTCCATATCCCAGTCCTGGAACCCAGACCTGGTCTAAGCTTTCCACGTCCCATCCTTATCCTTCCTGTAGATGTGCAAGTATCCCGGCCTCTGGCACCACAGCCCCTCCCTTCCTGCTCCGTCCGCACTGGCAGAATGTGAAGTTCATCAGTTAGCTTTTTAGGGCTGACATCTCCAATATCCTCTTGGCTTTCAGCAAGCATTTCTGTTGCTTGTTCACTCTCACAAGTGTGTCAGCGGCTAAGCTTCTGCTTCAGTGTCTTCATTCTGGGATCAGGGCTAACGGAGCATCCCATTTGGGGGACATGTTGTCCTTAGGGTAGAGAAAAAGAGCAAGAAGCTAGCAGGGCTGGGGACCTCATAAGACTCTTCTCAGAAGGACTCCTGTTCTTTTCCCTGAAGCATATGCCACTGTCAGGTTGACCCCAGGAGGAGATGGTGCCCCTCTCATGGGGAGATCCTTAGGCTAACAGGCAGTGGGTGGGGCGTACAGTGCTTAGACTGGGAAGGGGGCTCAGCAGATAACCTGGCCACAGCAATGTTGTCCACAAGAGAAGAAACTCCATTACTGAGGGAGGGGGACTGACCTCATCTGTAGGAAGGAAAGATGGTGTCATCGATGAAAGCTTAGCTTTAAAGGTCAGACACTTGCTGACCTGACCAGGTGGCCTTTTTAAACCTCAGTGAAATAGGGACAGTGCTACAGCCCACCTCTCAGGCTGTGTTAAATGTGAAGCATCAGCTTACTTAGTACTGGGCATAGCATCTGGGTTTAATGGACGGACGGACGGCATTCTGTGAGAGGACTCGTTATATGGCTGAATAGTATTGGCATTTACTGGGATGGTAGCTGTGGAAAATAAGGGGAAGGAAGACGAAGTGGGCAGAGATTGAAGAGCAGGGGTTGCCGGGGAGGGGGTGCTGTCCTTGCTTTTCCAGGACTCACTTTAGCGAGCTCCTTCCCAGAGTGGCTATTCTCAGGAGGCTAAACACCAACCAGGCAGCCTGGAACTGCCTGGGCCCTGTGAGAAGGGGCTCCAGGGAATGTTGTGCTTAGGAAGCAAGCCGAGCTGAGTGGATGTACCCAGGCAGGTAGTCCCGAGGGAGATACCCAAACCTCTGGGGTTCTGGGCACTGCCAGCAGTGGCATTTATCTTCTCAGAGCCAAGCTCTGGCTGTTAGCTTTCAGCTCAGCAGCTCTGCACTGATTTCCATATCCTCCAAAACACTGTGTCTGAGCTCATAGAAAGTCAGAGGGCTGAGGAGCCCTGACCCAAGCAAGCCTGCTCCCCAGGGAGCAAGAGTGGTGGTAATCTCTAGGGCAGGGGAGGAAAGGCCAGACATGGGTCACATGCTCAGCCTCCCCCTTTGCTGCTTCCTCTCATTGGCTGCATTGCTCCTCTCCGGGTAGCCAGCGGCTCTGGGGAATGGCACTGATGCTCACTCACTTGCCTCAAAGCCCTGGGAAGTTCCCCTCCAGGGTAGAGGATTACTGTTGTAGAGGACAGTCCTGGCCATCAGAGGTGCTCACCTGCCATCAGCCCTTGCCTTCCCTCCAGCAGAGACTGTTCAGAGTGCCGAGCACACACCCTGAGCCTTCCCCTCCTTCCCCCTCCTCCACAGCTCCTCACCCCTTCATGTACAGCTGAAATAACCCTTCTCGGAAGCCGTCTCTCCCTCCCACTCCAGTCTTTGCTGTGGACTTAGTTTTGCTGTTGTCTCGTGTAATTTATTCCTGCCGCCGCCCTTGGACATGGTTCATATAAATATGAAAGTTGGGGTTGGGGATTTAGCTTAGTGGTAGAGTGCTAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAAAAAAAAAAGGAAGTTGGCATTCAAAGAGATAACTTATTTCACCTGAAATTACACAGCTAGTAAAACCAGTCAGGACTTGAATCTAAAGCCAAGTGAGCTCTTCTGTTGAAGCACATAACGATAGTTGTCACAGAAACTAGCTGCCAGTGGTGGTGGCTGTCCTTCCCCAGTGACCCTGCTTGTTCCAGTTTGGTTTCTGTTCTGATGAACACCATGACCAAAGGCAGCTTAGAGGAAGGAAGGGTTTATTTGGTCCATCCCTGACGGCAAGTTTAAAGCAGAAACCAAGGAGGAGAGCTGGTACTGCCTAGACTTTGCCCTGCTCTATGTTCAGCTAGCTTCTCTGTTCAGCACAGGCCCACCAGGCCAGGGATGACACCGCCCACAGTGGGCTTCTCTATCAACCAGCAAGAAGACCATGTCCCACCGACATGCCCCAGGCTAGGCTTAAAGGCAATTGCTTGCCTCAAAACCAGTACCATAAATGGGCCCAGGACTTCACAGAACCTGCTGCCCATGGAATTCCAGAAAGTGAGCCCTAGTTTCAGAAAGGCAGTCTGACTTCTTTCCCACCCTGCAATTTCAAAAACATTTATCCAGAAAAAAAGAGTGTCTGGGCCTGGCTTCATGAGACCCTCCTGTCCCTACCCTCCACTGCCAAAGCTGATTCTTAGACCCTGTTTGGCAGGCGCGTTTTCCTCACCCTCAGATGCTGAGCTGCGGGGTTTGGAGGCCCTAGCCTCACAGACCAGTAAGTGTGCAAAGTCTGCTCTTGCCACTTGTGGTCACACTAAGTGTCCTTTGTTTCCCTCCACTGACTTGTTTCTTAGCTCTGGTCTGGGCGGTTCTCAGTTGAGGCCCCTCTACCTCCAGTCAACAGTAGACACTAGCTAGTGCACTGTTGTTTTAAGTGGGCAAGCCTGCCTAGGCTTCCTCTACTAAATCTTCATCTTCAGTCAGGCAACCTTTCCTCTGGCCTCTCCTGGGTCTGCCCTCCACACTGCGCATGTCTGTTTCAGATACTATCCTTCTTGTGTGAAGAAACCCCTTGTGTGGCCTGTCAACCCTGCTTCACTGGGACAGCCTGACTCTGCTTCCCTTTGTCCCTTAAGCATTTCACAGAGCTTTCTCCATGTGTTGGGGGCGGGGTGTAAATAGCCGAGAAGCTGCTGTAACAGTACACAAAGCGTTGCAGGACCGTGCTTTAGACATCAACTGCAGGAGGCATAGAGGACGGGTAGTGAGGCCTTGTGGGTAGGCATTTGAGATTTCTTTCTGTTGCTATGGCAAAACTCTGATTAGGGGAGGAAGAGGTTTACTTGAGCTTATAGGCTGTAGTCCATCATTGAGAAGTCAGGACGAGAACTAGGAAGCAGGAACCCGGAAAAACACTGTTTGCTGGCCCCCTTGCAGCCTTATACTTTCCGAGTGGTCTTAAACAAGCCAGGACCACCTACCCAGAGAATGGTGCCAGCCACACATTGGACCTCCCCTATCAGGTAACAGTTAGGACAGCCCCCGAAGGCTAGTCTGATCTGGCAATTCAACCCTTCAGTTGGACTCCTTTCTCAGATGACCCCAGGCTGTGTCAAGTTGGCGATTAAAGCTAACTAGAACACAAGGGGAAACCTGCAGCCAAAGGAGGTTCTCAGAATGGCTCGGAGCATTTCTTTGACCTGGGTCTGACTACCATGGTTCACATCCCTTTCTCCAG
Seq C2 exon
GTGGCGTCCCCCCCAATGTCGATCCTGAGGCCTACTCCTGGTTCCAGTCAGTGGATGCCGACCACAGTGGCTATATCTCACTCAAGGAGCTGAAGCAGGCCCTGGTCAACTCCAACTGGTCCTCATTCAATGATGAGACGTGCCTCATGATGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013972:ENSRNOT00000018742:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.245
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134991=EF-hand_7=PU(71.4=94.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]