RnoINT0060326 @ rn6
Intron Retention
Gene
ENSRNOG00000009342 | Fcnb
Description
ficolin B [Source:RGD Symbol;Acc:621222]
Coordinates
chr3:6617751-6619631:-
Coord C1 exon
chr3:6619497-6619631
Coord A exon
chr3:6618205-6619496
Coord C2 exon
chr3:6617751-6618204
Length
1292 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGCATGTTCTTTCTGGACAGGTG
3' ss Score
10.52
Exon sequences
Seq C1 exon
GAACCAATGAGCTGCGGGTGGATCTTGCAGACTTCGACGGCAACCATGACTTTGCCAAGTACAGCTCCTTCCAGATCCAGGGAGAGGCCGAGAAATACAAGCTCATTCTGGGGAACTTCCTCGGTGGTGGTGCTG
Seq A exon
GTGAGCTTGGGGGTTGCGGGGCAGGCTGTGAAGTGGGGACTTCTGAACTACTCTGGGAGTAGAAGAGCCTGCTTTTCATCTCCCCCTGGTGGCCTTGAGCCATGAACCTAGGTTCTACATCAGCAAAATACTAATATCTGCATCTTTAGGCCATGGGATGTAGTCTGTTAGCACTCCCAAGGGCCCAGCTCCATTGCATAGAGATTGAGGACCACTGACTACTATCTCTGATGAAGTCAGAAGGAGATAGTCATCTCTCCCTGGGTGCTAAAGCCCTGTTCCCACAAAGAAAGAACATATTTGGGCCCCCAAATTAGCCAGCCTTCCAACTCTGTGACAGAAAACTGAAGGAAGTAAACTCAGAAGGAAGGAAGACTAATTTTGGCCCATGCTTTCATCCTTAGTCACTTGGACCCAAGGTGAGGTCATGGTGGAAGCCACTTGTTCTAGGGCCAATAGGAACCGGAGAAAGGGGCTGAAGGGAACACCCTTCAAAGGCATGTCTTAGTGTTCCTCTTCTCCTAAACAGGCCCTGCCTCCCCATTGTCACCATCTCCTGACGGGCTACTAGGAATCTATCGGTTACTAACCCACTGAGGTCTCAGCTCTCCCAATCCAGTCTCCTGACCCCCAAACAAGGCCAACAAGGTCAACAAGCCTTCATCTTACAACACTTTTAGGGGACGTTAAATCTCCGAACCACAGCAACCCTCATTTCCCAGAAGGACTTGTGGTTTGGGAGGTGTATCTCACAGAATGCACTCTATAGCGTGCATACCTGGAGACAGGGGATTGGAGAGATTCCCAGTTTGAGCCGGGGAGCCTTGGGGCATGGCCACGCCTATTTAACTGCTGAACTCAGAGCTAAGTGAGGCAGGTCCCATCCTCAGGAGCTTTCTTGGTGACAGCTCCGAAGCGTACGCACCCACTTTGCACCATATTACCTTGGACTTTTAGAAAAAAACAAACAGAGCAGGGAAGGAAGGCTTCGATCGTGATCGGTGGGTAGGGAACCCAAGGCCATTGTGAGCTCCTTGTGACCTTATGCCCAGTTGGGAAGTAGAAAAGGATGAATCCTGGAGGCCTGGAGGTATGGGGCCATTCTTTGGTGCCTACTGAGAGACAGCCAGGTCAAGAGAAGTCTTAGAGGGACACAGGCAGCAGGAGACAGAGAGCCAGTCCTGGTGCTACTGTTCAGCGGGCTCCCAAGGGAGCAGAGAGTGTGGCTAGGGAGAGAGATGCCAACAGCCACCAAGTCTAGCATCTGTTTGATGCATGTTCTTTCTGGACAG
Seq C2 exon
GTGACTCCCTGACTTCCCAAAACAACATGCTTTTCTCCACCAAAGACCAAGACAACGACCAGGGATCCTCCAACTGTGCCGTGCGTTACCATGGAGCCTGGTGGTACTCTGATTGTCACACTTCCAACCTGAATGGCCTCTACCTTAGGGGTCTCCATAAGAGCTATGCAAACGGTGTCAATTGGAAGTCATGGAAAGGGTACAACTACAGCTACAAGGTTTCTGAAATGAAGGTGCGCCTCATCTAGCTCCCCACAAAGAGAGTGCCCCTCCCAAACTCTAGCATACCAGCAACAGGAGTCTTCTATCTTTCTTCAGCCAAGGAAGGAGTGTGCCACCCCGCCCGGCTCTGCTCATTGCCCACATTCCACACAGCCCATGACCTCTGACCTGGCTCTCTTCACATACCTATATTCTCACCACAAAGAAAAAATTGAATTTACAAAAGCTGCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009342:ENSRNOT00000012494:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(21.1=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(38.0=97.6)
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:
CCAGGGAGAGGCCGAGAAATA
R:
CTAGAGTTTGGGAGGGGCACT
Band lengths:
342-1634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]