RnoINT0122698 @ rn6
Intron Retention
Gene
ENSRNOG00000018832 | RGD1564854
Description
similar to divalent cation tolerant protein CUTA [Source:RGD Symbol;Acc:1564854]
Coordinates
chr3:13944404-13949208:+
Coord C1 exon
chr3:13944404-13944549
Coord A exon
chr3:13944550-13949148
Coord C2 exon
chr3:13949149-13949208
Length
4599 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
ATATCTTCTCTTTGCTCTAGGAC
3' ss Score
11.98
Exon sequences
Seq C1 exon
ATCCTGACAGCTGTTCTGACGTATCCCATGCTCAGGACCCTCAGCCTCTGGCTGCACTCCTCCCTCACCGGAAGCTATGTCTCTGGCTCTTACTCCATCGTTTTTGTCAACTGTCCCAATGAGCAAATTGCCAGAGACATTGCCAG
Seq A exon
GTATAGTGCGGAGGCTGGGTGTTGGCCCTAAATGCGTGGGAAGCTACCAGGGTGCTCTCTAGGGGCCACACAGCAGTCCATCTCTTGCTTTTGACATCATGTTCTGTACAAAGAACTCTGTACTTTCTGCTTGGGGTGGGATGAGGAACCCACGGCATGATCCTGTTCAGACTGACCCCAGGGCTGACCCTCCCATGCCATGATAATGTTAAGTAGAGGACGGGTAGAAAAGGAACCCGAGAAACCCATAAAGAGAAGGGGCTAGCTCGAGGGGGCAGTAAGAGGCCATGAACGCTTCCTGGGGACAATTCCAATCCCTCAATGGCCGATCCAACCTCTTTCTCATCCCCTTAGCTCAGTTAAGGAAGAGACCGCCCATGAATTGCATATTTTTCTAGAAATGACCATGCGATCTGGAAAGAGTACTGGGTTTATAATTACATCATAGTTTTAATGTTGGCTGTGCCACTTTTATTTATGTGACTTCGGGGTGGAGGACAGGAGTTGAACATGTTAGGTAAGTACTGAAATGCTTGATTACAAGATGGCATTTGCCTCACAACGCTGTAGTTACAATTTCATGATATAATCAGTTGATTATGGAAGAATCTTGGAGATTAGGGTTATAATCACAAATGCTTAGCAGACAGATTGACAAACTGGCCTAGGGTGTAACAGTGAATGAGGAGGGTAGATGGCAGCCTTTGTCCTCCCTGGGTGTTGAGGGGAAGGAGGAAAGGGAGTGTGTTGCCCAGGAATCATGTGTCGTGTCTACTCTGTGGCATTTAGTTACAGCAACAGAAGGTCAGGTATCACACCCACTCTCAGACCTGCATATCCTGTAACCACACGCAGAGCCTCTGAGGACACAGAGAAGCAGCTGGAAGGAGGCCGCTCTGAGGGTGGGTTCAGTGTGCTGTGGGGATGGCTGACCCTGGGCCTGCAGAAGACAGGCCTAGGCTCTGCCTGGCTTTCCTGCCCAAATTGCGTACCTGTGTACCTGCTCGGAGACAGGCAGGAGCCAATACGCAGCTCAGGTGGACAGATGTGCAATGGGCTAAGACCCGTTTGGAATTGAGGATCCAGACAATCTGTGTTCATGTGAATAAAATATCCTGATATTAAATACTGGTAACAAAGTCAAGATTTTATAATGCCCAGAGGGCCAAATCATGTACCTTATCTGTGACCTTTGTGTGCCTGGCTCTGTTCTTCTTCCTGAAGTTTCTGAGGGCCTGAGCATCATGGGCATGACTCGATGGTCTGCAGTGTTTGTGCACTTGCTCTGTATGAGATGGAGTTCAGCCAGTCTACCAATCTTTCTCCTCCTCCTCTTCCTCCTCCTCTTCCTCCTTCCTCTCTCCCGTCTCCCCTCTATCTCCTCTCTCTCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATCTCCTCTCCTTGGCAGTTGCTCTTTTTTTTGCATAAAAAAACTCCATGGTTTTGTATTCTGTCAGTTGAGTACAGTACAGATGCCTGTGATCAGAGGCAGGGAAGCTCATATTCATAAGAGACTGTGAAGGACAAGCAACAGATGGGTAACTCACTCCCTCTCCCCCCCTCATGTTTGTATGCCACAAAGAGAGAGAGAGAGAGAGAGAGAGAGAATTCCCAGTGGGTGGTTGAGCTGGGTTGAGCAGGCAAGCCTTGATGAGGTTGTGGGAATGGGTCTGTTTTATGTTGTACACTGGTAATTTTCCAAAGCAGCCACAATGGTAGCTGGCAGCGAGGTGATCCTAACATGGAATTTTAAGTACCGTACTCTTAGCCTGGGGTTCGAGGACAGAGAAAGGAAAACAGCCCTGTAGGCACACCCCCCCCCCCCCCGCAGCTACTTTAATAAGTGTCCAACCTCCCCTCTGGCCCACCACCCACCTGAGGTAGTAGAAAAGTTATCAGGACACAGGGGAGGTAGACCTGCTTAGAAATAGCTCTTTGGGGGCGAGTCCAATCTTCGTTGTCAGGATATCAGCAGTTCAGTCCAGGAGCAAACACCAAAGACAAATCAGCAGCTACAGTCCAGTCCACTTGGCAGTCACCACACAGGAACCAGCCAGGGCTCAGCGACCAGCCTGAGGCTGCAGGAGTGGCAAGAAGCCACAGGAACCTCATGAGAAGTTCTCTGGCGAGTTTCTTTCTGTGACGTCACCACAAGCAAAGCTCAGCAACATAAGGTAGGGAGAGCCAATATGGAGCTCAGCACACGATGTAAGGAGAGCCAACACATGTGTGTGCATGTCTTTAGCAAAGAACAGGGAGGCGGAACAAGGCAAACCAGTACTCGAGTTCCCATTGTCTGTGGAATCATATTTATCTTCCTTCTGAACATCATCCATTTTTTTCACATGTCTGCTTTGACGAAACATCCTTTCACCTGTGTCTGCTTCAGGAAAACAGTCTTTCACGTGTCTCCTTTGGCAAAACATCTTTCTCACCTGTGTGCCCCAGCAAACTATTATTTGACATAACTGACTTTCCAAAGAAACCAGAAATTTCCACTTCACAGCCCTCTCTCTGGAACAGTGAAGGAAAGGAAGGACCAGTGAGTAGGACTTAGATAAGGTCCAGGGTCCAACCTCTTGAGGTTGTGGTAAGAAATACTTAAAACAGAAAAAAATAAACACAAAACCATGAGAAAACCTCGAAAAAGCCTTTCTACTTGCCAAAACAACCACTGAATAGTGTGTTTCTGCTTGAAGTTGTGTGAGTTCTTTATGGTTGGTTCCATGGGGATCTACAGGTCAGCTGGGTGCATGGGATTGTGAAAGGAGCTCTCAGTAGTGAACAAGGTTAGAAACCACTGACGGAGCCAGTCTCTCCTCTAGTAAGGTAGAGAGGAGAGGTGCCTGTCTCTGAGCAGGTACACAGGTACGAGTTTCGGGCAGGAAAGCCAGGCAGAGCCTAGGCCTGTCTTCTGCAGGCCCAGGGTCAGCCATCCCCACAGCACACTGAACCCACCCTCAGAGCGGCCTCCTTCCAGCTGCTTCTCTGTGTCCTCAGAGGCTCTGCGTGTGGTTACAGGATATGCAGGTCTGAGAGTGGGTGTGATACCTGACCTTCTGTTGCTATAACTAAATGTCACAGAATAGGTCACTGATTTATAAATGAAGATTTATTTCGCCTTATGACTGTAGATCTGGGAGGTCCAGAAGCTGCTTGGTATCGGACAGTCTTGCATTATAACATGGCAGTCGAGAGCATACCGACTTCCTGTCTCTCTTTTATGAAGCCACTAATTCCACCCTGGTGGGGCCTCACCCTCATAACCTCACTCACCACCCTCTAAAAGCTCTCTCTCCAGATCCATTAATATGATTTATGATATTAGATTCCCAGCATAGGAATTCTGGGCACATGCTCAGATCATAGAAATCTGCCTCCAGCCCTCAGCATTCACGACCTTACGTGCAAAACACAGTCGTTCCATCCCCATGGCACTAAAGTTTAACTAACTGTAGTGCCATTTCAAAAGTCCAAAGTCCACGGTCTCATCCGACTTAGATTTGGGTGAGGCTCAAGGCACACCAGTGCAAACTGACTTCACTAGCTTGTGAAATCTAACAGGTTACCTGCTTCTAAAGTACAGTGGGGGAGCAGGCATAGAGCAGACATTCCCATTTGCAAAGAAAGGAATGAGCAAGAAATAAGGATTAGCTGGTCCCGTGTGTCTTGGGGCTCCTACTGCTGTGATGATACACCATGACCAAAAAGCAAGTTGGGGAGGAAAAGGTTTATTCAGCTTACACTTCCACATCACTCTTCATCGTTAGTGGAAGTCAGGACAGGAATTCAAACGGGGCAGGAACCTGGAGTGTCTGCAGTCAGGAGCTGATGCAGAGGCCATGGTGGAGTGTTACTTACTGGCTTGCTTCCCATGGCTTGCTCAGCCTGCTTTCCTATAAAACCCAGTACTACCAGTTCAGGGATAGCCCCACCTACAGTGGGCTGAGCTCTCCCCCATCAACAACTAATTAAGAAAATGCCTTATAGGCTGGCCCACATCCCATCTTATGGAGGCATTTTCTCAATAGAATGTTCTTCCTCTCAGGTGACTATAGCTTAAGTCAAGTTGGCATAAAACTAGCCAGAGCACCATGTAAGGCCAATGTCCAACAGCGATTGCATTTCCAAGGCTCAGGATAAATTCCTTGCTTCTACACCCTGCTTCCTGGATAGGGCAGCGGGAGGGCCACAGGCTTTATCCAGACACTTCGCTGGGTTCGGCTTACGCATACCGTGCATGTTTTGTGCTGTTAGCTCTACTGTTGTTTGGTCTCTGTGGCTCTCCTAGCACAGCCTAAGTGGACACAGCAACAGCTCCTGTCCACATTTTCAGATCAGTTAACTCCTTGCGGGTGTCCTCACCTACAGTCTCATTAGCATAATATTTCTAGAATTACGTTTCCAACATAAAGATTCTTAGGGCTATGCTTTGGTGGAAGAGGGACACCCTGAACACTTGTATCCTTAGACTCAGATATCCCGGGCAGTTCCCATCCCATCTGTTAAGACTTTAGACTTGCTCCAGTGATATCTTCTCTTTGCTCTAG
Seq C2 exon
GACCATCCTGGATAAGAAAATGGCTGCATCTGTGAACATCTTGCCTAAGATCTCTACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018832:ENSRNOT00000025501:2
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:
PF0309110=CutA1=PU(17.6=36.7)
A:
NA
C2:
PF0309110=CutA1=FE(19.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]