RnoINT0024986 @ rn6
Intron Retention
Gene
ENSRNOG00000018798 | Bcan
Description
brevican [Source:RGD Symbol;Acc:2194]
Coordinates
chr2:187370019-187372652:-
Coord C1 exon
chr2:187372416-187372652
Coord A exon
chr2:187370128-187372415
Coord C2 exon
chr2:187370019-187370127
Length
2288 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTCATCTTTCCTCTTCAAGTTC
3' ss Score
8.73
Exon sequences
Seq C1 exon
CCCGCGCAGAGAAGGGAGCGGGTCCCGTGACCGCGCAGAGCCCCCCACGGGGGCGGCAAAGGCCGGGGACGGCGGGGAAGGCGGGGCGCGTGGGAAGAAAGGGGGTTTTGTGCGGCTCCCGGCGAGCTGGCGCCCCCGTCTGCGTCCCGCGCGCCCGGCCCTGCTCGCGCCCGCGCATTGCGCCGCAGTCTCGGCTGCGGCTGCGGGACGCGCGGTGTGTGGAGGGGACCTCACAAG
Seq A exon
GTGAGTGCGGAGGCCTGGCCCTGTCTGTCGCTTACTTGCTGTGTGACCTTGGGTAAGTTTCTTGACCTCTCTGAGCCTGAGGATCCGGGCGTGGGCGAGGGCCGACCGCAAGCCAGGATGCTGTGGGCGACGGGGACAGTCACCCACTGTAGATTTCTGGGGTCCCATAGGCACTCGGGGGCACGGTTGGCAGCGGCGCCTCTCCGAGGGTGGGCGCATAGCGCACTGTGCAGGCATGGGCACCCTGAGCCACAAGGCGCCGCCGCGCAGCCTTCAGAAGCCAGGGGGCACCTGGGCTGAGGAGAGGCTGAAGATGCCCAGGCTGGAGACAGGGGGCTGCGGAGCCCGGGTCCTTGTGGTGGGTGGCCTTCCTCCCGGAAGTGTCAGAGCGGCCGATCTCTGAACAGGAGCCACTCTTGGCCCACTCGTGTTGGAAATTCATGTCTCAGGGCAGTCGGGTCCTCTGATCTCAAGCTTCCATCCTCGTCTTGTGCTGCCTCAACAGCGGTAAAAGAGGTGACTACAGGGCCGGGCGTCGTGTGAGTAGCTCCTGCTCCCGGCCTCCCCTCCTCAGAAAGCCCCAGCACCTGACTGCTCCCTTCATACTTCGCAGCGATAACCCGAGTTATTGCTCACACGACCTGCAGCACAGCACAGGCCAGAGCAGGGCTTAGCAGGGAAGTCTGTCCTGGGAGGATCTGGGAGGGCAAGGCTGGGATCTTAGGCTCAGGCAAGAAGAGAATATGAAGGCAGATGGAGTGGGAGCCGTAGCCAGTGAGAATAAGTGTGATCGGTAGGAAATCTTGCCTGACATCGTAACTGACCCTGGATGCATCCTCAGCACTGTAGACCTGGACCCCCATATACGTCCAAGTCTGGCCTGGCTCTTAAAGAGTGTGTTCATTTCCTTCCTGAGGGCACGACGGCCTGGCTCCTGATTTGGCTCAGAGGTCGCCCTAACCCTCTCTGGGCATCCACCTCACTTTCCCTATGTAAGAGCAATGGGCTCCTCAGAAAGAGAAACTGTTTCCAGAGCTGATGGCCAGGGGGGTTGGGGGGGTGGCCTCTCCCTGTACCCTTCTCCAGTACACTCCAAGTTGTAGGCTTTCACAAAAGATGGGTGGGGGAAGGAGCAACTGGATGGAGGCCAGACTGGCAGGGACAGGGTCTTTGTCCCGGCTGGCTTCTGAGCCAGGGGATCCGGTGGGAAAGCCTGTGCCAGGCAGAGGGGAATGGCTGGGAGCAAAGCGGGAGGGAGGGAGGGGGCAGAGGATGTTGGGCACCAAGGGAAGCTTCCTTACAAGTCATTCCTGGTGGAGAGGAAGCAGGAGAAGCTGCAGTTTCAGCGGGATTCAGTCTAGGAGGCCCTCCTGGAAGAGGACGTGTCAGGCAAGGAAGACTGGAGCTTTACTGTGGGGGAAAGAAACCCCTAGTTGGCACCTGAGTGTGGGGCCGAGGGGGTGAAGTGGGACCACAGTTGTGCTCCCCACACCATGCATCTGTGGGTTTGGGTCTCCAACCCCCAGTAGCTGCCTGGACCTGCTCAAGTCCCTCATAGAAAATGATGTCTTTGCATCTCACCTACGCATGTCTTTCATACACAGGAACCGGTCTCTAGGTGATTTATAATTCCTACTAAGAGTATGCATGCTGTTTAGGGAACAGTGACAAAAGCCTCTGTATGTGTTCAGTACAAACTCTTTTTTCTGCATGTTTGACGGGTGGCTGGTTTGGATGTATAGATTTTGAATACAAGTGTACAGAGAGCAGATTACACAGTACCACCCGTCCCTGTGTTACAAATATTCGCTGAGGGGNCCAANTNNNNNNNNNNNNNNTNNGATCGTGANCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAATATTCGCTGACATCTGTTGTGTGTCTGGTGCTGGCATATGCCCGGGGCGGTTTTTGTTGTAGATTATAGATAGTTAGGTAAGTAGCTAATAGATAGTGGTAACTATGTGCAGATGACAGCTAGATAGGTAGACAGACATGACTCAAGCATACGGCCCCATCAAAATTCATAAGGTGATAATAATGGTGCTTTTTTTCTCTCCAATTAAGAAGACACAGACTCAGAAATGGTAAGGTCACACAGTGAGTTGATTGGGGACACCTCTTGACGCTGTCCGTTGATAGGAATAGATAGAGAGAGAGTTAGGGGTGAATCTGGTATGTGCTGGATGGAAGTCCACCCTGCAGTCTAACAACTTTCATCTTTCCTCTTCAAG
Seq C2 exon
TTCTTCCAAGTTTGCAGCATGATCCCATTGCTTCTGTCCCTGCTGGCAGCTCTGGTCCTGACCCAAGCCCCTGCAGCCCTCGCTGATGACCTGAAAGAAGACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018798:ENSRNOT00000025496:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0768612=V-set=PU(12.1=54.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]