RnoINT0037333 @ rn6
Intron Retention
Gene
ENSRNOG00000001247 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:RGD Symbol;Acc:67404]
Coordinates
chr12:38395527-38400418:+
Coord C1 exon
chr12:38395527-38395631
Coord A exon
chr12:38395632-38399701
Coord C2 exon
chr12:38399702-38400418
Length
4070 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATG
5' ss Score
5.98
3' ss Seq
CTTATGACCACTGTCACTAGGTG
3' ss Score
5.43
Exon sequences
Seq C1 exon
ACGCAGACCAAACTGGAGCATGCCCGCATTAAGGAGCTTGAACAGAGCCTGCTCTTTGAAAAGACCAAAGCTGACAAACTCCAGAGGGAGTTAGAAGACACTAGG
Seq A exon
GTAATGGTTTTCACTATTTCATGAAGCAGCTTCCCAAGTGTGAATGGTGGACACGTCGGGTGACCGGCGACAGGCCTGCCATCGGCCTGAGCCTTGTCCCAGGGGTTCGGCCTGAGTTTGGTCTCAGTACCGCTCAGGTATTCGTGAGCATAGAGTGATGAGGAGGTGTTTTGTGTAAAGCATTTTGTCAAAAGTAAACTTATCTGAAATCAAGATCAGAAGCCTCCTAACCCTATAAACTCTGTGGTTCTCTCCAGTGGGATTTGAGGTTCTCTGTGTTAGTACTTTAAAACACTTCTTCTCCAGTTTCCACAAGCAGCCAGTTGTCCTCCAGTTCTCATATTCCTAGTTACTCGGTTTTCTAAATAATTTATGCTTTTCCCTGCCTTTGCCCCTGGCCTGTTGGGAAAAAGAAATGGAAACGTTAGCTCTCTCTCTCTCTTTTTTTTAAAATGAGAGTTAAGAACTTTGACCCGCTATTATCTTTTCTTTTCTGTTTCTCCACCCCATCCCCCTTAATGGCTGAATTTACATCTCCTTTCTTTCTGACACCCAGATTAAAATCCAGCGGTTAGGAAGGTCAAATGTTTTTCTTTTGGGGCCAGGGCCTCGGTCCTGTTCTAATTGTTTATGTATTAAAGCACCTGTAGGGTTGTCAGGCGCTCACTCTCAGTGTTTTGTAAATACTCAGCTTTTCTGGCACCCTTGGAAGGAGGTTGTATTATTCTCACCTTTTCTGTAGACTTCTGCAGAGCAAAGACACTAAGCACAAAGATGGTGGTGCGTTTGCTTAAGGTCTCACAGCTGATGATAATCGTGGAGCCAGACTCGGCGTTTCGGGTCATTTGGTTCCAGGGTCTGTGCTTGTAACTACTATAGGAGAGAATCTTTTGATTTGTGCTAAAAGAAATCATCACATGTTAAAAATACATATATTCATATAGGTACCTGTTAAATCATGTTTGACTGTGATTGGCCTTAACTTTAAATTTTCAAAAATTACTTCATATCTATCAGATCAAATTTGTTACCCTGACTTTTCTTTTGAATCAGTAGTATTTGTAGAGATTTCTTTTGGTGTGAAATCATTGATATAAAAACCTAGACAAATGAATAATCTTCCTTTTCTCAATCATAACCTTTTGTTTTCTAATAAAGAAGAAAGGCCAGGGAGATAGCTCATTTAGTAAGTAAGGTATTTGCCTTGCAAGCTTGAGGACCTGGGGTTGGGTCTCAGAACCCATGTAAGAAAGGGTGGGCATGGTGGTTCATGCCTGTAATCCCAGCCCTCCAGGGGCAGAGACAGGTTTCCTGAAGCTTGCTGGCCAGCCTAGTCAGTCTCATCTACTTGGTAAAGCTAAAGAGAGACCCTGTTTCTAAAACCCAGGTAGACAGAGCCCAAGGACAGTCACCTGAGGCTGTCATCTGGCTTATATATGTCCTTGTGCACATAAGCACATATATACAGACACACAGACCTGTGCACAGACAGGTGTGTATGCACGTAAAATCATAAGTAAGTAACGCTGGGTATAGTGGCACGTGCCTGTAATCCTAGCACTTGGGAGGCTGAGACAGGAGAATTACCACAAGTTCAGGGTAGCCTGGCCCACATAGTGAGCCTGGCTCACTGCAGAGCAAGATTCTGCCTGGGAAAAACAAAACAAAACAAAACAAAACAAAAGCAAAAAGAGAAGGGAGAAAATGGTTCCAGTTGTTCTCAGAAATAAACATGTATTTGGTAAGAAAAAGAAAGAAAGGAAAGGAAAGGAGAGAGACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGGGCGAAGTCTTGATCTGGGGAATTCAAAGGATCACGAGACAGAGACCCTTTGGTGTAACTGAAATAAGGGAATATACCTTTTTTTTTAACTTCTAAACTATTCTTCCATGCCTTAGTCAGCACAGATTCAGTTTTCTGGTTTTGTGCTGGATAATAAGACACCTGTTTTCAAATGAGACTTCACAGCCTTCCATATCGCACAGTGTCTTCTATTGGCCCTCACTCCTGGTGTGCCGCGTGTGAAAATAACCAGTGGTCCATTGACTTCCCACATCACCTACAGTCCTTTTCGGGAAGTGTTTTAGAACTACCCCCACCCCCGGCCTGTAAATCCAATTTATACCCAGCTTACCTGGTGCTGTCGAAATATAAGCAAGAATAAGAAACAGCTCCTGACTTTTATGGCCATAAACCAGCAGGAGAATTGTGACTGAGGGCAGATGTTGGAAAATTAAATTTAAAATAGAAGTGTCAGAATACCACACAGAGAGCCACAACCCTGTTGCCTTTGACTTGGCGTTCTCTGAATTTGACAGTTCCATTGTGACCAGGAACGGACATGTTGGCTTTAGTTTACTTATGCTATAATCTCGTGGCAAAAGGGTTCATTGTTGTTTTATATACTAGTTGTAGGTAAGAAATTGATGGACCTCCCCTCCCTAGAGATGAAATATAAATGAATTAACATGTTTAATCTGAAATGTCTCTATAGCCATAAAGCCTACAACCTCAGTCAGTTCCAGATCAGTCAGTGACTGAGGTGTCCCCCCCTCCTTTCCTTCTGGACATTTATTTTACTGAGCATCATAACATGCTGGGTGGACAAGGGAAGCAGAAGACACCTGTCCTGTGTTTCCTGTCCCTATACGGGCAACACGGACAGTGGCTGACAGTAGGAAGAGGCTGGTCTTGACATCTGCGACCATTGGTATTTTAAAACTACCTGTATTCCCTTCTGTTTCTCAGGATAGACAAAGGTTTTTTTATGTCCTAAGACCACTTTCTCTATATATTTTTGTCCCAAACCGAGAGGCTAGGAAGTAGCAGTAGAAAATGTCTGTAGATGAAAAAGCACAAGATAGCAAAGTATCTTTCCCCCTAACTCTGGAGTATTTAGTTTTTAAAACTCCAGAGCTCAGATGGAGTCAAAGTGTGTGGACGTAGCAAGAGCACAGCTGAGATATGCGTTCCACTTGTGTGCGCTAATGTTGAGAACCACTGGGTTAGGGAAACAGGGTGCAATTGTGAAAGCCAGAAAGGGGTCTTTGTGTGAGAGGCTGATGTCTAATCACAGGTAAGTGATCCTTTAGTGTCATTTAAAGAGCCAGTGAATTCTTCATTATCCAGCTGAGGCTTTAGTCTACAGCACTGCTCACTGAAACATGGGAAGTTTTAGCCCTTGTATACCTGCTGTGTCTCAGAAGTAGAGTGCAAGCCGCATAAACTGAGGTCTTAACTTTCTGATTGGTGCCCACACGCTAAGTTACAGGTGAAATTAATTTGAATAGTATATAGAACCCAGTCTATATTTAAAATATTATTTTATCATGCAGTGACTATGAAAATCATTAAGCTACTTTATGTCTGTTTTTCCCTGAGTTTTCAAATCCTGATGTGTGTCTAACGGCACATCTTGCTTCAGATGAGTCACATGCAGGGCTCGGCCACCTGTGACTAGTGACTGTCTGCACGATGGGCTTTAATCACAGACCTCAGGCAGATGCACGGTGGGCTTTATAATAGGACTCAGGCAGATGCACGGTGGGCTTTAATCACAGGCCTCAGGCAGATGCATGGTGGGCTTTAATCACCGACCTCAGGCGGGGTAGCCCCTGAAGTGCTACTGAGTGCAGTCTGGGTAAGCAAGGCAGGAAATCTGACCAAAGGAGCATGCTTGCTTTCAGGAGGCAGGCAGGTTGTGGAGCACTTTGGAAACTACTGTTTCTGTTAACTTCTTATCAGTTAGTGAGTACTTCCGGTTTAAGCCTCCTTAGAGTCCAGGTAGAGTTTGTTGGAGTGAGGTAAACTCAATATCCATGTGAGATTCCCGAATTGTGGGAGCTTGTTGAAGATTATAATAATCACATAGTAGAGCTTCCAGAATCGAGCTTAAGAAGCCGTTATCTCTGTGTGCGAGACATTAACCCCCACATGTGATAGCTTGACTTTGCTTGACTCCGGGTGTTTTGTAAATAAGGAAAATCATCAGTGCTCTCTGTTTCTTATGACCACTGTCACTAG
Seq C2 exon
GTGGCTACAGTATCAGAAAAGTCCCGAATAATGGAACTAGAAAAGGACCTAGCGTTGAGAGTACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAGTAAACCTCCCGGAGATGTGGATATGTCTCTTTCTCTTTTGCAAGAAATCAGTGCTTTGCAAGAAAAGCTAGAAGTCACACATACTGACCACCAGAACGAGGTGACGTCTCTGAAGGACCACTTTGGAACTCGGGAAGAGATGTTTCAGAAGGAGATCAAGGCTCTGCACGCTGCCACTGAAAAGCTCTCCAAAGAGAACGAGTCCTTGAGGAGCAAGCTTGACCATGCCAACAAGGAGAACTCAGACGTCATCGCTCTGTGGAAGTCCAAACTGGAGACCGCCATCGCGTCCCACCAGCAGGCAATGGAGGAGCTGAAGGTGTCCTTTAGCAAAGGGATTGGAACTGACTCGGCTGAGTTTGCTGAGTTAAAGACACAGATAGAGAGACTCAGACTAGATTACCAGCACGAAATAGAAAGTTTACAGAGTAAGCAGGACTCCGAACGGTCTGCCCATGCTAAAGAGATGGAGTCCATGAAGGCCAAGCTGATGAAGATCATCAAAGAGAAGGAGGACAGCCTGGAGGCCGTCAAAGCACGGCTGGACACGGCGGAAGACCAGCACCTGGTGGAGATGGAGGAGATGCTCAGCAAGCTGCAGGAGGCAGAGATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001247:ENSRNOT00000001685:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.307 A=NA C2=0.430
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0157614=Myosin_tail_1=PU(66.2=82.8),PF0017016=bZIP_1=WD(100=16.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]