RnoINT0032260 @ rn6
Intron Retention
Gene
ENSRNOG00000023068 | Cd5l
Description
Cd5 molecule-like [Source:RGD Symbol;Acc:1308526]
Coordinates
chr2:186690829-186692910:+
Coord C1 exon
chr2:186690829-186691152
Coord A exon
chr2:186691153-186692586
Coord C2 exon
chr2:186692587-186692910
Length
1434 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
GCCTCTCCCTTTCTTTCCAGACC
3' ss Score
11.74
Exon sequences
Seq C1 exon
AGTCTCCAACTAGAGTGCGGCTAGTGGGAGGCGCCCACCGCTGTGAAGGGCGAGTGGAGGTGAAACACAACGGCCAGTGGGGGACTGTGTGCGATGACGGCTGGGACTTGATTGATGTGTCTGTGGTGTGCCGGGAGCTGAATTGTGGAGCAGCGAAAAAAACCCCGAGTGGTGCATCATATCATCCACCAGCATCAGAAGGGCAAAGCGTTCTTATTCAAGGAGTTGAATGCAGTGGGGCGGAAGACATGCTGGCTCAATGTACGCTAAATTACGATGTTTTTGATTGCTCGCATGCAGAAGATGCTGGGGTACAGTGTGAGA
Seq A exon
GTAAGTATGGAAGGCTCAAGGACCATCTTCTAGTATCCTATGCCCCAGGCAGCCATTTTGTTAGTCTTTGATTCCTGCTGTGAATATTCACACGGTGCGAAGATGAATGACGGCAACACCATCCTCTACATGTTACACGTTCTTGATTACAAGACTTGGATATAATAATGGCTGTGATTATTATCCACATGGCTTCTTCCTTCCTTTCCAGGCAGATATGAGATCCAATTTCCCTTATTCATGGACATGCAAATAAATCTGTGCAGATCTGTCAGCCACTGGACACTTGTTCAATGTCTGTGTGGAGTTATGGGAGAGCCCATGAGGTTTAATAAGTGTTTTTTTGTGAACATTTTACTTCTTTTTTTTTCAGAGCTGGGAACTGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCACTCTACCACTGAGCTAAGTCCCCAACTAACATTTTAGTTCTTTAGTTGCCTATCAGCTTAAGTGGGGAGGGGGAAGATACTTGTGGGAAGTCAAAGCAACCTCACAGGTAGATGGAACAGGCATATAAATATGGAATCGATGCAATCGCACAAAGAGACAGACACACGGACACAGTGTTTCTTCACTGTTCTGCATAATTAGCTCTCTATGAATTAACATTATGCGTGTGCTTTCTCTAAAGACTGTGATCTAATTGCAAGGCCGCCTCCATCCCCTTCTTTTTGTGTCCCTGCAGGATTTACCATTAGAGAAAAGATGAGCTCCCCAATGTTAAATTCTCCTATTTTTTAGAAAAGTCAAGGTTTGGGAACATTAGTAAGGGATACTTGATTTATGCCAGCATAGAGCCAAAAAATATTTTGACGTTTCAGTTAATATGTGTGTTTATTATGTTTGGTGCTTTTTCAACATTAATCTATATGTTACATAATATAATTACACATATATAATATACATAGATTAATATAATCTATATTATATAGATTACATATAATATGTATTTTGTATTAATTTGTAGTGCTTTCAACTGTCTCTTGTGAGGAGTAATTAGAAGTTGAATATGGAAATAATTTGAAAAACTAAAATGCCCTGGGCAGTGGTAGCACATGCTGTTAGTCCCAGCACTTGGGAGGTAAAGGCAGGCAGATCTCTGTGAGTTCAAGGCCAGGCTGGTCTACAGAATGAGTTCCAGGACAGCCAGGACACAGAAGAGCCCTGTCTCAAACAAACGAAAAACAAAACAAAAGAAAAACTAAAATGCTACAGAAGTGAGTATGATTCATGTAGGGACTGGGAAACCATCACGTCATTCTCTTAACCACCATGTACCATGTGGTGCTACAACTCTAACAGCCTCATAATGAAGGCCAAGAACTGAGCCATGTGTAATCAGACTCCCTTTTCCGAAAACACCGTGTTCTGACATGGAGCAGACATTGCCTCTCCCTTTCTTTCCAG
Seq C2 exon
ACCCAGACAATCCAGAGAATGTGCGGCTAGTAGAGGGCCTCGGGCGCTGCCAGGGTCGACTGGAGGTGTTCTACCAGGGCCAGTGGAGCACTGTGTGCAAAGCAGGCTGGAACTTACAGGCTTCAAAGGTGGTGTGCAGGCAGCTGGGCTGTGGGCGAGCACTGCTGGCCCACAGATGCTGCAATAAGAATACCCAGGGCAAAGGACCCATCTGGATGAGCAAGATGTCATGTTCTGGACGAGAAGCAAACCTTCAGGACTGCCCTTTCAGTCCTTTGGAGAGCAATTGTACCCATGGCGAGGACACGTGGATGGAATGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023068:ENSRNOT00000057022:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=91.7)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGATGTGTCTGTGGTGTGCC
R:
CACACCACCTTTGAAGCCTGT
Band lengths:
349-1783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]