RnoINT0036167 @ rn6
Intron Retention
Gene
ENSRNOG00000017939 | Chn1
Description
chimerin 1 [Source:RGD Symbol;Acc:620139]
Coordinates
chr3:60513077-60515434:-
Coord C1 exon
chr3:60515329-60515434
Coord A exon
chr3:60514112-60515328
Coord C2 exon
chr3:60513077-60514111
Length
1217 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
GTTTTGCTTGTGTTTTTCAGAGT
3' ss Score
9.61
Exon sequences
Seq C1 exon
AAATTGTGGACCCTGATGAGCAACTGGAGACCCTTCATGAAGCACTGAGGTCTCTGCCGCCCGCCCACTGCGAGACGCTCCGGTACCTCATGGCACACCTCAAGAG
Seq A exon
GCAAGTTGCAGCTCACATCTTACTGCTGTACTGCAGCCAAATATCAAGAATAAAATTAAGCAAAAGGTGAAAGAGAGGTCACGTTCTATGAGTGAATGTGTAGGTGCATAGCACCATTGTCTTCTGAGAAATTGTGCCAGTCAGGAAAGGATGCTAAAAATAGTGTGCACTACAGTTCCACGTGCTGGGCGTCCTGACACCCGTGCACTGCAGTTCTAGGATCTGCGTGTAAGGATGCTAGTTTCTGCAGACACTGGTGACCATTCTGAGGACAGGGAAAGAAAGGACTGCCGCTGTCAGCCTGTGAGGCCACCTACTTTTCTGTGCTTACTGCTCCAGTAAGCACTTCACGCTTGGCGTGTGCAGTTCGGATTTTTTACCTACAGTTTTAACTACTTTTGCCAACTTGGAAAGTGCATGAACAGTGATGGAGGAGAGAGGAATGTGGTCAGTCAGTCTGAAGCTGGGATTGATGATGACCAGAAATCTCACTTATGTGATGTCAGTGGATTAGGGCTTCACACACTAACATCAGTTAGAAACAAAATTCTCTATGCCCAGAAGCACATGTCATCCAGAGTCACTCACAAATACCTACTCCTTCTCCTCTGTCTTGCCCTGTCACCCTGGCTGCCTGCCGGTAGAGTTAAGAGCGTGAGCCCCCTGCCCAGCTCTTTCCCACTTACAGACGTCGTGTTCCAACTTCCTTTGAGTGTGTTCACAACTAACGCCGCTTGTAAATTAAAGTTTGCTTCACATTTGGTGTTAGTTAAGTATTCAATAATAAACTAGTAGCTCTGTCTGTGCTGTTGCTGTAGGGTAAGGGATGAGAGACAAACCCTGACCCCTATGACCCCTCTTCCCTGCCTGCACAGATGGGCTCCTGGACACTCAGAGCTCACTTCACTAAGGAAGCCACAGAGCCCTCTCCTCCTTTTTGGAAATGTGTCTGGCCAGGAGAATCCACAAACATCTGAACCCACACAGTCCAGACGTGAGCCCAGCAATCACCAGGACCAGGATAATTATTTACCAGTATGACTTACTTCAAAAGAAGTCGAATCCCTTGAAGTCCCCAAGAAGCATGAAATTGATAATTTAGGAAAGCTGGCCAGTGGGCATAGACCTAGACTGTGGCTCTGGTTCATTTGGGTGCTCAGACTTAGTGAAGAGCATCCTGACCACTGAGTCACCTGTGTTTTGCTTGTGTTTTTCAG
Seq C2 exon
AGTGACCCTTCACGAGAAGGAGAATCTGATGAGTGCAGAGAACCTTGGGATCGTGTTTGGTCCAACCCTCATGAGATCACCAGAGCTAGACCCCATGGCCGCCCTGAACGACATACGCTATCAGAGACTGGTGGTGGAGCTGCTTATCAAAAATGAAGACATTTTATTTTAGAGTTTTGACTTGAGGAGAAAAGAAATGGTTTACAGATGAAGGAATGTTTTCTAGTAATTTAATTAGCTTCATTAGCTGAATTGTTTCTTGGTTAGAGGTTTGGCCAAATACCCAGATTAAAATGAAGGAACTTCCTGTCATTTCTCTAGCACCGCTCAGCCGTCCTTGTAAAACCGTGAACACACGCTTTCTGGTCCTGGTAATCCTGGGTGTTTATCATGTTAAGAGAAACTCAAGCTACTGCATGATTACCCCTTTTTGGTGAGGAAACCCCATATTGAAGAATCACAGACTTGTTCCTGCACCATCTCTCTGTCCTGGGTTGTCTGTGGTTGTCACCCAGCATGCTTCCCAGAGTAAACTGTCATGACATTGCTTTTGGGGTCCATACCATTGGTTTCTGACGCTTGCACATGCGCACACGTGCACACGTACTCACACACACACACATGCACATACACATACACACACATACACACCACACACACACCACAAACACACACACACCACAAACACGCACACACACACCACAAACACACTCACACCACAAACACGCACACACACACCACAAACACACTCACACACACACAGACACACACGTATAAGCAGCACCCTGGCTGTTGCACTCTCATCCCTGTACCATACGCCAGCTCCACAGCAGTTCCTTCCCAGCTTCCTCCTCTCAGACATAGTGCTTTGTCTTCAGCAGAAGCGAGACGTGTTTTCAGATGTTACTTCAGTAAGCTTCCAATAAAAATGCACCACACAGCATTTCCTGTTAAATTATTGGTTTTCAACTGTAAATTTATATTTTTACCTGGCATGCAGTTATTAATTTATTAAATTTGGCCTTTAGAAATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017939:ENSRNOT00000068745:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(22.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.8=55.2)
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:
ATGAAGCACTGAGGTCTCTGC
R:
TGGGTATTTGGCCAAACCTCT
Band lengths:
356-1573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]