RnoINT0024994 @ rn6
Intron Retention
Gene
ENSRNOG00000018798 | Bcan
Description
brevican [Source:RGD Symbol;Acc:2194]
Coordinates
chr2:187362750-187365837:-
Coord C1 exon
chr2:187365250-187365837
Coord A exon
chr2:187362858-187365249
Coord C2 exon
chr2:187362750-187362857
Length
2392 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TCACTTTTCTCCTCTGTTAGGTG
3' ss Score
9.66
Exon sequences
Seq C1 exon
AATCAGAAACCCAATCCGTTGCACCACCTACCGGGTCCTCAGAAGAGGAAGGCGAAGCCCTGGAGGAAGAAGAAAGATTCAAAGACACAGAGACTCCGAAGGAAGAGAAGGAGCAGGAGAACCTGTGGGTGTGGCCCACGGAGCTCAGCAGCCCTCTCCCTACTGGCTTGGAAACAGAGCACTCACTCTCCCAGGTGTCCCCACCAGCCCAGGCAGTTCTACAGCTGGGTGCATCACCTTCTCCCAGGCCTCCAAGGGTCCATGGACCGCCTGCAGAGACTTTGCAACCCCCAAGGGAGGGAAGCCTCACATCTACTCCAGATGGGGCAAGAGAAGTAGCGGGGGAAACTGGGAGCCCTGAGCTCTCTGGGGTTCCTCGAGAAAGCGAGGAGGCAGGAAGCTCCAGCTTGGAGGATGGCCCTTCCCTCCTTCCAGCGACATGGGCCCCTGTGGGTACCAGGGAGCTGGAGACCCCCTCAGAAGAGAAGTCTGGAAGAACTGTTCTGACAGGCACATCAGTGCAGGCCCAGCCAGTGCTGCCCACCGACAGTGCCAGCCGAGGTGGAGTGGCTGTGGCTCCCTCATCAG
Seq A exon
GTAATTCTGCCGAAGGCTCGATGCCCGCCTTTCTCCTTTTCCTCCTCCTCCAGCTCTGGGCCACCTGATCACGCTGGTCGGTCGGCCTTTAATCCACCTTCTCCCCGGACCCTCTGGGCCTTTGCCCTCATTCCCTCTCCTGTCTCTCCCTGTGGATCTTTCTTCCATTCTGTCCCTTGCGCCCCAGTTCTCTGATCCTCTGCTCCCCGGCCCTACCGCTGACCCCCACCACTGACCCTTGGGCCCTCTGCTGTAGCTCCCATGTCACTGGCCACACAGGATGTCCTCAAGTCTCTTCCTGGTGCCCTCACCAGCCTTCTCGACCCTTGAAGGCAGGCCTGCCATCTGCTGTCCCCTCCCTTGTGCCTTTTGTTCCATCCCTTTAATCACCTCCCATGGATTCCAGGGACGCCTGAGAGACCATCCCTGCCCCTCACCTCTGGGGACCAGAATAGTCACCCCAAAGAGCCTTAAGCCACTACTTCTGTGAAGTATTTTTTGACTGTTTCATGGAAAACAAGCCTTGGAAATAAATCTGTATTAAACTGCTTTGTACCCAGCTGTTGACACCCCGTCCATCTCCAGCTGTCTTTTCTGCTCATTGCTGTGTCTGAATCAGGGATCTCTGGTTCCCTGTACCCTCTCCATCCTCTGTGTCTCCCATGCGTCTCTTTGCCACTCTTCGGCCAACATCATTGCTGTCTCAGGACAGCAGCTTCTTACTGTTCCCTCTGTCTCTCCTTGGGCCATCTACACATCCCTTCATACTGCTGGGACCCCAGACTTGACTGCACATATCACCCAAGGGAGTCCTCTGTCACCTACAGAAGAAACCCACACTGCCAGGGTGTGATGTGTAGCTTACCCAGGTAGTTCCTGCATGGAGCTGGTTCTCTGGCTTCCCAAGACTTAAGCATATCGTCTTCCTCAGGGCACCCAACAAGAGACAGTGCTATTACCCTGTGCCCACTGCTCCCCTCCTGCACTAACCCTGCACTAATGACCCCACCCCAGGAGAAACAGGTTAATGCTCTTCAACTCAAAGGACCTGGCTCATTCGGAGCTGGGTAGGGTGGGGTCAAAAAAAGGAACTAGTTTCCAGAAGGAACCGTCTGTCCCAGAAGCCTAAGGTTCCCATCGGAAGCTCTCAGGGAAGGCTGAGGCCCTCCCAGGTTCATCTCTCCTCCATGGCTCAAGTGGAATACCAACCCCATGTCACAAAAAGCCCACCCATTCCTGCTGTTACTACCTTTCTGCCCACTGGCTTTGGAGTGGGTGTAGGTGGGAAGGGGAGCCCCTTAGAAGTCACTGCAGTGTCAGCTCATCTGTAGAGGGAGCCAGAGGTCCCTTGACCTACTGTCAGGAGGTGGGAAAGAAATACTTTCTGGCTCTGTGGGGTAGAAAAAGAGGAGGCGAACCAAAGTGGGGGGGAGCCCAGCCAAGGTGGTCGCTGTAGCCCACAGCCAGGTTGGGATTTAGGACCTAAAGAGCAAGGACTGAACTTTTTTTTTTTTTTTTGGTTCTTTTTTGGAGCTGGGGACCGAACCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGCAAGGACTGAACTTAAGAGCCTGTCTCCCAGGGTTAGAGGGCTGCCCAGGAAGGAAAGGAGACTGGAGAAGCAGAAAGTGTGAAGACTCCAAGGAACCCAAGACTTTCACCCTCATCACCTGAGACCAAACTTCACCTTACTTGGAAAACTGCTAGCAGAGGGATGCTCGAAATGTTAGATGCTAGCAGAGGGATGCTCCAAAGGCTGCTTGGTCAATTTACCAAATATAGCTGGGACATCACAGCAAATCAAATCAGCCCAGCTCCTCCTTCCTCCTTCCCTGCTGCTACCACTAGCATGAGGGCCTTGTTCTCAGCTGCTGCTGGGAGTAGTTCTGAGGGCCCCGGTCTGCTCTGTTGGTTAAAGGAGCCACTTTCTCTGGTCATCTGGACCAGAATGGAGTAGATGCTGACAGCTTCTCCAGCACCTAGGCAGGGCCCGGAGAGAAGGTTGGAGAAGGCAGGCGGGTGACCCAGCCGGAGGCTGGCAGGAATCCAGGTCTCAAAATCGACAGCCCTGTACTTCTCCCCTTTCTTGGCCTCTTCCAGTCAGCTGCTCAGGGCTCCCACTGGTGGGAACTTGAGCCAGTCAGGAACTGGGAGGTGAGAGTGAGGAAAGGCATTCAGAACTGGGGGTTTGGGGTGGAGGGTGGGCTGGAGTAACAGCAGAACTGTCACCTCCCTGCTCTGGAAGATGCCTGGACTGGGGGACCCGGGACCCTCCCCTGGAGAGCTGAGTCTGCACAGCTCGCCCTCATGCTCCACCACCTCACTTTTCTCCTCTGTTAG
Seq C2 exon
GTGACTGTATCCCCAGCCCCTGCCACAATGGTGGGACATGCTTGGAGGAGAAGGAGGGTTTCCGCTGCCTCTGTTTGCCAGGCTATGGGGGGGACCTGTGCGATGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018798:ENSRNOT00000025496:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.975 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=83.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]