RnoINT0137689 @ rn6
Intron Retention
Gene
ENSRNOG00000018649 | Slc35c2
Description
solute carrier family 35 member C2 [Source:RGD Symbol;Acc:1311250]
Coordinates
chr3:161807880-161810728:-
Coord C1 exon
chr3:161810638-161810728
Coord A exon
chr3:161808235-161810637
Coord C2 exon
chr3:161807880-161808234
Length
2403 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
CCCGCCTCTCTTCTCTCCAGCTG
3' ss Score
10.87
Exon sequences
Seq C1 exon
GTCTTTGAAGCACTAAGCTGTACAGCCACATTCCGCTGAGGAGCTAGAGGGCAGCCAGGTGTTACAGCATCGTTGCCCACCCTGCTCTGAG
Seq A exon
GTAGGCACGGTTTCTTGGGGAAAGGGACGCCCGCTGAATTCCTTGCTTGGGTTGATGTGATTAGAAACCCGCTCTCCCTTACCATCGAGGGAGGATGAGGCCCTTAGGGGTTTTACATTTTGTCTAGCCAGTGTGAGGCAAATCACTGCTTAGTGAGGACGCACAGAGTGAATGTCTGCTTCCTGGGGTCCTTTCTGGCTGAGCTCTGTCTTTGCGTATGGGGATAGGTGACTTTCTGCATGGTGTCCCACAGAAGTGGGGAGCTCGAGAAGCTCTCTGAAGGAAAGGTGAGGCTTGAACAGTAGACAAATGGCAGTACATTGACCAAGGAGGAAGTGGTCAGAAGTAGTCAGGTTAGTAAGTTGAGAGAAAGGGGAACAGGATACCCTGGCATGTAGTGTGCCCCACGACTGCCTGGGAATGGGAGGCGGTGGTTCTCAGGGAGCACGGTGTGGGCTGTTCTGGAGTGTTGGAGACTCAACCCAGACCCTCCACATGCTAGACCAGCACTACAAAGTAATTTCTGGGCACGGCCTGGGTTGTTACAACTTGGGGTGGGGGACATGAAACTCGTGGCATCTGCTGGGTAGAAACGGATTTGTTAACGGATTGCCGCGTAGAAGACTGGCCTCTCCCAGAAAGATTCAGTAGTCTCAGGCTACAGAGCCCCAAGCATTGAGGGAATGGGAACCTCGAGGTCTGTTTGAGGAAGCTTTAACCCTGGGTCCCCAACTGTTTAACTGTATCAACGGGAGCCTGAGATCAGAGGTGAGATCAGGTGAACAGGTCTGGTTAGCAGTTGGATCTGCCTCTGGAGTTCATGGTGACCAGAACTGGCTGCATGCTGGGGAGATGTGAGCCTACAGAAAGTATATCAAGATATAAGGCTGCCTTACGCACGTGGGGCAAGGCCTCCTCGTTGGACCCATCATGGCTTTAATCATGGCCTGTTTATTAACCCGGAAGTCAGTGCCCAAACTGTAGGGTGAAATAAGACATACTTCGCTCTGTTCGTTTCTGCGGTGCTGGAGTTGCAGTGAGAATTCTTCTTGCTGTAGAATCCACGAGAGTGAGCCCACCATGAGGGGAAGCTCACAGCCACCACGCCAGCAGCTCCAGAGCTGTGAGCACTGTTGCCGTCAGTGAAGCAGCATTCCATTTGGGCAGCCCACATGGTATTCTTATATTTTTGGTTGTGAGCCTAGCCTTTAACGGCTGAGCCATCTCTCCAGCCCCCACATGGTATTCTTAACAGTTTCAATGTATGGCAGAGCCCCGGAAAAACTGGTTTGCCAAAAGTAGTGGCCAGCCCTCTGCCTTGTGACTATCAGAGGTGCTCCAGATGCAGAAGCCTTTTTAGCCTTTCTAGTCCCTGCTCACTAAATGCTGGGCACCTCCTCCAGGTCACCACCCTGGGTTCCAAGCTCCTCTAAAGATAGCCAGAGTCCAGGAGTCCTTTGGGCAAAGCCCACAGCCAGCCCGGTTTGCCCTCGAGGAGGAGATAAGATAACAGGTTCCAGAGTGCAGAGCGGTCTGTCTGTCCAGCCTGGTTGGGGAGGAGTCTGATCTCGTGATTCAGGAGGGCTCCCAGAGGAACTGGCATTTCAGCACAGTGGGGAGGAAACACCTGCAGGACACCTGAAGAAGCCCATTAGAACCGTGAACCAGGCTCACCCACGAAGAGCCAGGGCTCCTGAGCCAGGTTTGCCCTGGGCACTCAGCGGTGTTGAGACTAGCTGTTGAAGACCAGGGCAAGGTACAGCTGATCCACTCGAGGTCCTAAAGACCTGAAATCCCATACCCACTCTCTGTCATAGTCATCTGACTAAAAGGGAATATAGAGAAGGCCGGGTGGGTGTGCGGCCCTCGTGGAGTGTAACCTTACAAGCATTACATGAGGGGACAGGAGTGTGGCTCACTGGGAGCGTGGCCCCAAGCATGAGGCCCTGGGTTCTGTCTGCAGCACTAAAAGGGGAAAAAAAAAGTCTGTCCACTCAAATCACTCCCTTCTTGGTTGCTACCAAAAAAGGAAGCAGGAGAGCAATGGGTCACAGACAGGCTCCCGAGGGACAGGATTTATACTGAAGTTGGCCACACTGAGGAGGGATAGAAGGGTGGGCTGGGTGTGTGTTCCCGCCATCCCTTCTGGCTGGGAACAGACTGGCAATGACAGACTAGACCAGGTCTAGTCTGCAACTCCAGGCAGGGCTTGGCCTTCATGAAGGCAGCTGGGGGCTGCTGAAGGGCCGGAGCAAGGCCTGACGAGACCGCAGCCATCTGTGTGGAAGACAGTTTGAATGTGTACTAGAGCCTCAAGTACCTAGACTGGGGCAGGACCCGTGGCCTCTGGTCTCTTGGTGGCCAGAGCTGGTCTGTACCTGACCCCGCCTCTCTTCTCTCCAG
Seq C2 exon
CTGTATAGCTGGGGACCCGTGACTGTTGCATCCAGCTAACCATGGAACAGTTTGGCTCCAGCCACCAGCCCCTTAGGTGAGGACTCAGTCAAGGGCCCACTGCCCATTCCACATCATGGAGGCCGAGAGGACTCTTCCAGCCAGGGGAGCCGCCCTTTGAAAACGGTGGTCCAGTCCTGCTGGTTCTCCCTACCAGCCACCTTCAAGAGAGGCCCCTATTCCTGCTGGCCCACGGATGGGGAGGTGGGCCCTGGACGTCGCCTTTGTGTGGAAGGCAGCGCTGACCCTGGGCCTGGTTCTTCTATATTACTGCTTCTCCATAGGCATCACGTTCTACAACAAATGGCTCACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018649:ENSRNOT00000025238:2
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:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
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]