RnoINT0060320 @ rn6
Intron Retention
Gene
ENSRNOG00000009342 | Fcnb
Description
ficolin B [Source:RGD Symbol;Acc:621222]
Coordinates
chr3:6622127-6624321:-
Coord C1 exon
chr3:6624208-6624321
Coord A exon
chr3:6622181-6624207
Coord C2 exon
chr3:6622127-6622180
Length
2027 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
AAGTATGTCTGGTTTTACAGGAG
3' ss Score
6.17
Exon sequences
Seq C1 exon
AGGTGAAGGTCCTGGATCTGGAGGGCTCCAACAAACTCACCATCCTTCAAGGCTGCCCTGGCTTGCCTGGAGCCCTGGGGCCCAAGGGAGAGGCTGGTGCCAAAGGAGATAGAG
Seq A exon
GTGTGTGCGGAGGGAAGGGGGTATATGGAAGGGGACAGCAATGGTGGAGGGGTCATAGAAAGGGCAGGGAGGTCTTCAGTAATGATGGGAGGTTTTCAGAAATGGCGGGAGATCTTCGAACAGTGGATGCCCACCTCGGGCCCTCCCTAACTCTGGGTGGTCTTACACCGGGTACCTTGACAGAATGGCCAGTGACAAAAACTAGCTCCAACTAGTCTAAAAAGACACAGGAGGGCTTCTCTGGAACATCTTAGGTGCTCCAAGAGGGCTTTGCAGCCCCGCCCCTTTGCAGCCCCGCCCCTTTGCAGCCCCGCCCCTTTGCAGCCCTGCCCCCTGGTCCCTTACCAATGTTTGCTCCACTTGGCCACCGTAAGACATCTAGGCAACAGACACATTCACAGCCGCACCTGAAAGCCAGACCGTGGCTTTCTTCTTCACCTGCCTCACACGATAGTACAGCGGCTGAAAGGGACTAGCCCCTTCCTCCAGCGAAGAGTGGGGCAGCCTCCATCTGGGATCTGCTGCAGGGTACAGTCACTGGAACCCTGAACCACAGCATTCCCACTTGTGGAGACCTCAAGCACACTGTTCTCTTCAACTGGGGGACAGTGGTGGTTGGTACCTGTTTTCTAAGTCAGATGTGCCCTGGGGTTCAGCAGGAGAGCCCCTTGCTTGGGTACTCCAGGTAGAGCCTGGTGTGGATCTGGTGGGGACAGGACAAACCTGGACACCTCTACGAGAAGATGCCAGGCTTGAAGCCAATGTGGGTGGCCCCAGACTGAGTCCCACTTGTCTGTTCACCTCTGTCATCCCAGTAAGTGAAGAGATATCTGTCCCCAGAGCCCTGATGAGGGACTTGGAAGAAGAGGTTATCCCATGGCCAGGATAAGATAGCTAGCAATGGGGAGGGCTGTTTACCTCTTGCTTTGGATCTCACTTCCCTATATCTAAATTGCTACTGGCATGCATTGCTAACTTGACTCAAAGTGAGAACTAGTGTGCCTGGGGCACTGTATTGTCATTAGGCCTGCAGAAGCGGTCCATCTGTAGAGGATGGTTATCTCCGTGGCATCTTTGGGCACACCTGACAGTGGAAGTTTGCAGCCTACAAGCTCCTGCAGAAATGCAAAGACCAGTGTTGTGCTGGGGCAAGTGTGGCCCTGAGATCAGAACCTGCAAGAAGGACCTTATGACCGCCTCACAGCTTCCATCAAGCCAGAGACGTCTCAGTGAGGGTTTCCATTGCTGTAATAGAACACTATGACCAAAAGCAACTTGGGAGGAACTCCCAGCTTGTAGTTAGTCATTCAGGGAAGGTAGGGCAGGAACTCCAGGTAGGAACCTGGAGGCAGCAGACGATACTGAGGCCGTGAAGAAATTCTGTTCACTGGTGTGCTCCTCAAAGTTGGCTCAGCCTGTCTTCCTGGCTCCCAGGACCACCAACCCAGGGATGGCACCATCCACAATGACCTGGGCCTACCGATATCAACCACTAATCAAGAAAATGCCCCACATGCTTGCCCACAGGCCAATGTGCTGGGGGCATTCTCAGTCTGTGTCCTCTCTTCCCAAATGACTCTAGCCTGTGTCAAGTTGACATAAAAACCAGCCAGCACTGGGTCTGTGAGCATGATACAGTCATACCTTTCTTCATGGACACCGTGGGAGAAGCTTGCCCTCTCCTTATAGAGACCTAGTAGAACAGCATCTCTAAAGACATCTTCCGCAGTACAGTCTCTGTGGCCTAGGCCTGGTCCACTCAGCTTGGACAAGGAGCAAACAAAAGCTTAGTGACTGAGTGCCTCAGTGCACAGCCATGGGTTAGGATACACCTCCCTCCCCACTGCATCCTCCCCAGTCATAGGGTAGGCTACACCCTACCCTCGGCACCCTCCTCAGTGAGCCTGGCTGTGGTCCCAAAGGTCACTGTGGCCAGCATGACAGGGTCAGGAGTTTGCTGCTGAGACAAAGACCTTCTGGGGGATAATGATGGATGCGTTGCTCAAAAAGTATGTCTGGTTTTACAG
Seq C2 exon
GAGAGAGTGGCCTTCCTGGACACCCTGGAAAGGCGGGGCCAACTGGACCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009342:ENSRNOT00000012494:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(37.7=59.0)
A:
NA
C2:
PF0139113=Collagen=FE(29.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]