RnoINT0130543 @ rn6
Intron Retention
Gene
ENSRNOG00000004155 | Samd14
Description
sterile alpha motif domain containing 14 [Source:RGD Symbol;Acc:1306138]
Coordinates
chr10:82829043-82829857:+
Coord C1 exon
chr10:82829043-82829166
Coord A exon
chr10:82829167-82829568
Coord C2 exon
chr10:82829569-82829857
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGG
5' ss Score
4.94
3' ss Seq
AACCACTGCCTCTCTTCCAGGTG
3' ss Score
9.86
Exon sequences
Seq C1 exon
CTTACACAAAGCCAGGGCTCAGCTGCTGGTCAAGGGTCGGAGACACCGGCCTTCCCGCTCCAGGCTACGTGACAGTACCAGCTCTGCTGAGGACGGTGAAGGCTCTGATGGGCCCGGAGGCAAG
Seq A exon
GTTGGGGTAACATACACACATCCACACCCTACCCCTGGATCATACTCCCTCCCTCGCGCTCCCAGGGTAATGTGCCCCTGGAGATCTGACAGTCATGCTCTCAAAGGTCAGTTAGCAGTTCACTTCTGGTTCATGAGTCCTCTCATACAGGAAAAGGTGTTAGCCCATTTTACAGATGAAGCTGAGACCAGAAGGGTTCAGGAAGTCCCAGTAACTGTGGGATGAAGTAGGATGTCTTCACTTCATGTGATCATCCGCTTCTCCAGTTTTGAATCCGAGGAAACCCGCTCTCCAGACCCCAAGAAACACTTTCCTTAGTGCTCCCATACAGCCAACAGGGGAAACTGGCCTCCATCCTCTGGGAAGTGAGGAGGGGGAGCTGAACCACTGCCTCTCTTCCAG
Seq C2 exon
GTGACCGACGGCTGCGGTAGCCCGCTGCACCGGCTGCGCTCGCCTTTGCACTCGGGCCCAGGCTCCCCAGCCGGCGGCTCTTTCTGCCTGGAGCCACCGGGCTTGAGGCGCAGTCTGGATGAGGACGAGCCGCCGCCCTCGCCACTCGCTCGGTATCGGCCCCTGCACAACGCCGCCTCGCATGAGGGCCTGGCTGCCACCTCCGGCTCGCCACCGCGCTCCGCACCCTCCTCCGACAGCTCCCCCAGCTTCGTGCGTCGCTACCCTCGAGCAGAGCCGCACAGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004155:ENSRNOT00000005519:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGCTACGTGACAGTACC
R:
CTCTGCTCGAGGGTAGCGAC
Band lengths:
342-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]