RnoINT0038648 @ rn6
Intron Retention
Gene
ENSRNOG00000027016 | Cobll1
Description
cordon-bleu WH2 repeat protein-like 1 [Source:RGD Symbol;Acc:1308954]
Coordinates
chr3:51159584-51164488:-
Coord C1 exon
chr3:51164414-51164488
Coord A exon
chr3:51159813-51164413
Coord C2 exon
chr3:51159584-51159812
Length
4601 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GTATCTGCATCTCTTTGTAGCTG
3' ss Score
8.35
Exon sequences
Seq C1 exon
GCCTACCTTTGGAGGATGGGATTGTTCCAGACAGCATTTCAGAAGTGAGCTCTCCTGAGGGTATGTCCAGCCCAG
Seq A exon
GTATGACCCCTTCACCCCACACTGAAATTGTGAAGGAAAGAAATGCCTTTAGAGTAGAGAAATGAAACAGATTGGAATGTTCCTTGTACTGAGATTTGAATTCTTTCTACAGAGTTGTTCTACAGAGAATCCTTTGTGCCCCCCTCTCCCAGCCCCCACCCCCCACCAAGGAATAGACACTGGGATAAGAAACTGTCAGAAATCAGAATTTCAGTTCTGAAATTGGACCCCAAGTGATTTCTCTATTTGGTTTCTTGTTCTTCCTTATGTACTCTCTACTGAACGGTTAGCAGCCTTCCTCTAGTTAATGACACACCCCAGTGGGATGATTCATTGGTATGTTTCAAAGACTTAACATTAAGCACGATCTCTTTCAGCAACTGCTTCACTTATGAAGTCAGCTTTCATGTGTTCCCCTCTTTAAAAAGAATTTCACTCAAATGTACTTTCTACCACACAGCTCTCACTGTGGATTCTCCCAAGGAAATGAAGTTAAAAAACAAAACAAAACAAAACAAAGACTTGATCTGTTTTTAATTATTTCAATAGTAGCTACTTAGAAGCTTTTGTAAGAATAAATACAAGCAGAGTGTAGTGGTACAAATCCATAAATGCAGCACTTGGGAGGTTGAGGCCAGCCTGCTTTAAGAGGGAAAAATATTAAAAATGTCATACTCTTAGTACATTAGCATGGCGATAATTTGTAAGTGTCAATGTTGGCCACATATGAGTACCTGGATTATACTGCTTATATTCACAGAGACGGCCAAGTCTAGGGACAGCTTACCTTTATTCTTGACTCTCACGTGGTACTTAGAAGTTTGGGATTTTAAGTTGAAAAAGAATCTCCTGTTTATAGTATTAAAATATTGCCATTAGATAAGTAGTTATGCTTTTTTCCCCCCTTAAGCAGGCTCTACAATTCATTCCATCCCATCCCAACTCATCTACAACCATCTCAGTCCACACAGGGAACTTATTAAGATAATGTTGCCAACATAAAATACACACAGGAATGAGAAAGTTTTAAAGTTTCTGAGAGGCAGCCATGCTACTCTGACTTTGACTGATTTCTAGATCTTGCTACCTTTTTAGGGCTATTTTTTGGTATATGTGAGCTCGCAGCACTGGTCCCACCACGTTTGGATGTGTGCTTGCTTTGTTTTAACTTTCTTTTCTAAGTGCCATTTTTACAGACTCTACTTCTTTGACAGAGGGCCCGGGGTTCCTAAGCCAGGAAGAGTGCTCTGTGCCCAAGCCAATGGATGAAATCTCTGAGGGCCCTGGAACTCCAGAGGCAGCTGTAGCTTCCATGACCTGTAGGTGCTCAGGCTGGAACTGGCTGGGGCTTTGTATACGACATGGAGTATAGATCAGATTGCTCATTACACACTGAAAAAATGTTTCATAAGTAAATATGCGCCCAGTTTCTCTTTCCCTTGAAGTTTTACCTAGGCTTGAAATGTACTGTTTTCCTGAACCATCTAAACAAGCAGCCAAGTAGAGAGAAGTCACTCGATGGCTCTAGGGACCGCTTCTGCTTGTTTTGGGCTTTCTGCCATTCTCAAGGGCTGCTTGATCTTTATTATTCTCAATGAATAGTGAATATGTAAGAGAATATTTATGCTGAGAATATTTAAACTTATTCTCTACTGAACTCTACCCATTTGCTATGTGGCTTATTTTCTCTAACATATTCTCAGATGCTTTTCCTGTTTTAAAAGTAGAACTATTTTGTTCGAAGATAGCACAGTATTATAATTGTATGACACTTGGATCTCCTCATAAATTTACTCATCTTTTATTGTTATTTTGCCTTCTTTTTTTTTTTTTTTTTTTTTGAGCTGAGGACAGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCACTTTACCACTGAGCTAAACCCCCAACTCCTTACTCATCTTTTAAAACTCAAAAAAATAAAGCCCTTTATTCTTTCAACCTAGTCACCTACAATTAGTATACTGTCTCATGCTCCTTGTAATAATGCAAAATTGTTTGAGAACTTTGGCGAATAGTCTGATGAGGATTTGGGGGTGGGTAGATGTAGACTATTGTCTGTATGCAGGTGAAGACAGGCACAAGATAAGGCAAGGCCTGTGATTGGGCAGCGACAAAGTAAGACAGGAGAGAGGAGAAAGAAAGAGGAACCAAGATGGAGGCAGAGGACGGCCCAGATCTGTGTGACCTTAAATGGCCGCAGGTAGTTATGAATATTTCATAAGGGATGGATTCTTATAGGACTATTTATCTTATCTAGGTTAAACAGTTTATATCATTACCAATTGGTTGTGAGTTTATTGTGTGGACCTTTTATGGATTGAGAATTTAAGACATAAATCTGATTGCTAAATTACAAGCTTATTGAGTTTTGATTTTAACGGGTTACTGGGAGTTGAGACTATAACGGAAGGGGGTAGTTGCTGGGGATACGCACAGAGTCAGCAGTCAGAGAGCCTTAAGATAGGCGATCTCTGTATGAAACTGGTGTGGGCAGGGGCTGGCCTTGGGAAGTAGAGATTGCTTCTGGGCTCAGAGAGTAGCTATAGGCAGGGTGGGATGGAGATTGGGAGCTTAGCGGTTGAGACGCTTTGCTGATTGAAATGAAAATACCCCGCAGATGCCATGTGGCCCCGCCAGTGCCAGCATTAATGTGGGATGGTAGAATAATTAAGCCATACAGAGATGACCCTCATGCTTTTTGCTAAGGGAGAGATCTCCCCATGTGCTATAGTGTAGTCTTTGACAGGGTATTTAAAGATGAAATGTATACATGCACTTCCTATAGGACTCAAGAAACCTTGCCCATGGGTATTTTTTCATGGAAAACGAAAGCTGGAGTACACACAGAGTGTGCAGCGTGACAGCTTCTCTCATGCTCATTGCCTGCAAAGGGGAAAATGCTCAACGGTTTCTAAACCGTAAATCAGAATTAAGGTGTAACCCATCTGCCCACACAGTGCAGTGCTGACTAGAAAGGGAAGCGTGTTTAGGATCGACTTAAGAAAATGGTATTTACCAGAGGCATAGTATCTGTCAAGCAAGTTTTACATTTTGATAACTTGGAAAAATGTGATATTTGAAAAGACAAGCTTAAATGTTAAGTTTAATAGCTTCGTAAGTCAAAGTCCGCAAGCAAACACTTCCTTTAAAATACTAGTTGCGTTTCAAATTCATGTGTTTCCATTTTATTTAAATTCTAGTTCCTTAGCAATTTTTTTTTTTTGAGTAGCCAACTTTTTATGAGGGAAATAGTTAACAGTACTAACTACTAGCACTTTTTTATTTCATGCTTCCTTCCTCCTCCCGCCTCCTTCCTCCTCCTTCCTCCTCCCGCCTCCTCTTTTTTCTTTCTTTCTTTTTTTTTTTCTTTCTTTTTTTTTTGAGACAGGATCTGCTCTGTAGCCTGGGGGAGACATACCTACCTCTGCCTTTAGAGTACCGGGATTAAAGGGTGTGCACCATGCTTGATGTTAATTTTGTTTTTATTTTGACTTTTTTTTTTTTGTTTTGTTTGAAGAGGGTGTGGCTGTATTGCTCACTTTAGACTAAAATTCTTAGCAGGAGTCATTCTGTTGGCTTAGTTTGCCCAGGAGCCATATTTACTTCTTCCTTCCCTTTTTTTTTTCTTTTCATTCAGATTGATTGATTGATTGAGACAGGTTCTCTCTGTAGTTGTCCTGGAACTCACTGTAGACCAGGCTGGTATTAAACTCATAGAGATCCGCTTGTCTTTGCCTCCCGGGTGCTGGGATTAAAGTTGTTTGCTACTACCGCTGCCTCGTATTATTTCTCAGAGATCAAAAGTTAACACACTCTCTGGTTTGTTAGAGCATTCTCATGGTCTGACCACTGTAGCCAGTGAAATATGACCTTAGTGCCCTCCCTCAAGGTAAAGCTAAATGCATTCAGATGCTGTTATGTGAATGGAGATGATTAATTTGTTTAAGCAGAAATCAAAACCTTGTGTATACTTTGGCTTTCACAGTTACTCTTGGCAAGAATATGAGCACTTAGCTGCTAGAATGTTTCTCTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCTCCTCCTCCTCCTCCCTGCTTCCCTTAGTCTCTTCCTTCCTCCCTCCCTTCCTCCCTCCCTTTCCCCCTCCCCCACCCCCTCTGTCAGTGCTAGTGTTACTGAGACAGTTTACAGACAAACTAATAGGCAATACAAAAATCTCACATATTATTAATTTGAATTTTAAGTTGTTAATTTGTTTAATGCACATTATTATGTGACTATAAATTACCTAACCAAAGGTTTCATTTGTAAATGCAATTATGTGAAGTGTATAAGGCTAACTAACTTTCCATGAACAAAGCCGAGAGTGGGAAACACAGTCAGTTCTAGAACAATGGGACTGTGAGGCTTCACGAAGTGCACATGCCCATTCACCATTCACATAAGCATTTCACTATTACTTTGGAACTATATTGTAAGAGTCTAGCTAATTAGGACATCATTGCTAGGATGCTAGATTGCTTAGGATGAGCAGGACAGATTAATATTTAGGATGGTATCTGCATCTCTTTGTAG
Seq C2 exon
CTGGCGTAAGCTCGGATTACAGTCTTGAAGAGATAGATGAAAAGGAAGAACTGATGGAGGCGTCTAAAGATCAGGCTGGAAGTGTGAAGTCGCCTACCATTGCTTCAGCATCTACGGATATGATAATTACAGCGGAGAATGATCCTGATTCAGCCCTCAGCATCAGTGATGGAGAGACCTCTCCAGGCTCTAAGGGAAACACTCCAGAAGGCAGAAACCCAGAGGGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027016:ENSRNOT00000001607:9
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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]