RnoINT0040561 @ rn6
Intron Retention
Gene
ENSRNOG00000028207 | Colgalt2
Description
collagen beta(1-O)galactosyltransferase 2 [Source:RGD Symbol;Acc:1304702]
Coordinates
chr13:69885367-69889507:+
Coord C1 exon
chr13:69885367-69885420
Coord A exon
chr13:69885421-69889400
Coord C2 exon
chr13:69889401-69889507
Length
3980 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
CCTTTTTTATCCCGCTTCAGATT
3' ss Score
9.07
Exon sequences
Seq C1 exon
TCCCAGTTTGTGTCAGTTGTCCCTAAATATCCAGACAAGATGGGGTTTGATGAG
Seq A exon
GTAGGAAAGTTTCTCTCTCCCTCCCTCTCCCCTCTCCCCTAACCCCTCCCCCTCCACTTAACCCTCCCCCTTCCCTCCTCCTCCCCCCCAGTCTCTATCATTATCCCTCTGTCTCTGTGTGTGTGCTCCTGCCCTTATGTGCACATGTGTGTTAATATGCACATGTGTGCAGAGACCTCTGTGTTTATGTTGGAACAGAAGACAGAGCCTCTGTCTGAGTGCAAGCAGGCAAGCTTGGCCGCTGGGCATCCTGCGGACTTCGGTTTGTTATCATTCTGTTTTCTGGTCTTCACGAGGGACGATCATAGAAAATTGAACCAGAAAGGATTATTTGGCAATGAATGCAAATTTGCTATATAATTTTACCAAACTTTTTATTGAGGTTCAAGGGTAAGGCATGAAGAATAGGTTTTGGGTTCCGGAGGACATTAACTTTATTCTGCTATAGTTGCGTGGATGGAAACTATTCTAGGATATTCTATGTTTCGTTTACTTTTCTTCCGTGGCAAAAGGTTGGAGGGCAGAGTTGAAAGAAGTAATGAAGAGAAAAACATGTCCTAAAATTCTGTCTTTCAGCAGGCAGGAACTTTATAGTAGTTTCCCTAGAGCGGTATCTACTGTGCAATCATATATATATATATATATATATATATATATATATATATATATATATATATCATGGCAGAGATGGGCTTTCAGCTCAGTGGTCGAGCACTTTCTTCAGATAAGTGGAGCCCTGGGTTCAATTCCTAGCACAATAGAAGGGGAGGGGAAGGGAGAGAGAGTGGTACAGGAGAGGGAGGAAGAAAGGGAGAGAGGGATGAAGGAAGGAGGGAGGGAGGGAGTTAAGGAAAGAGGAAAGAAGGTAGGACGGAAGAGAGGAAGGAAGGAAAGAGAGAATAATATAAAGAGGTGTTTTTCTCGTAGTGTGTAAAATGGTTGACAGGGCCAGAATCCGAGTCTGTGCCATGAGCCCTTCACGGCCCCTGATGTGGTTACTGGTCAGCGCTGAGTTCTGTGGTCTGGAGCTGTGACCTGCCAGGAGTCCAGGAACTGAGACAGAATTCTTCCAGGGGTTCTGGGTTTAAGCCAAGCATTGTGCTTTGAGCTCAGTCTGCTTTTTGGAAGAAAACACCTTATCGCATTGGAACGTGAACATCTGTGCCCCCAAACCATGTTCATCCCAAGGAGCCAATGGAACTAGGAATTGGGATCTCTGCCACAAAACTGACTTGACGCTAGACCTCCAAAATTAGGAAATAGGTGTTTTATGAATATCAAATAGTGATTGTGCCATCTCCACAGAAGGCAGGATGAATTTAAATGTAGCAAAGTATAAATAGAGCCTATTAAGTCTATTCCTATTTGCTAAAAATAGGAAATAGTTTTCAAAACTGTCGGGTGCTACAAGGGTGGGCTGACCGGCACCACAATGGGGGTGGGGGTGGGGGGACCTCCCACACAGTGGCCTCTTGCTGAGTAAAGGTCTCCTTCCCGGAGGCTCTGGCCTCTCTTCATTTTCTAAGAAGGAGAGCCCATGTGTCTTTAGTATCTTCCTCTGTCCCCCTGGCATCACATTTCTGTAAGGACCAGTTCTCAGCAAATGAAATAAAATTAGGACCGTCTTGGTTCACCTTGGGCAGGACGTGGTGTGTGTTAGGCCAGCCCTAGAAAGTGAGGCAGGCCGAGACTCCACTTTCCACAGCCCAGGATAATCATCTCTCTGTCTGCAGCAGACGTGGGCTGTGGAAAAGAGGTGTCAGAGGTCTTTTCCGCCCTCCAGTACTGTGGCCTGGTTGCTAGTGTCTGGCTGTATTTGGCACTTGACTCTGTGCTCTGTTTACTAAGTATGAGCAAGCCGTCTATGCTTTCCCTTCATGGCTACTGAGTTTACTGCCTTTGCCCTGGCAAGGCCCAGGAAGGGACTATTATTTACTAAAAGCTTCCTCGACTGGAGGCCTCTGGTTTGTAGGGGACGTTTTGGATGCTTCTCTGTTTATTTCGCTTTGTTTTGCTTTGTCTCCTTGGGTGACCTCGGAGGGCCCGGTGAACGCACAGAGGATATGCTGTATCCTTCCTTCCTGTGTCTGTAAAACTGGGGATGGAACATAGCCCTTGACAGTCAGGATTCTAAAGAAAACGAAGCATGAAAGAAGACGGCACACACTTAAGCTATAAAGTCCCACATATATGTCACACAGAAATTATGGTGGATTTTCTCTTGTTTTATTAATAACTATCCAATTAAGTAATCCAAGAGGTAATCGAGTCCTGCCCAGCACCTTCCCTGCCCAGCGTTGCTGGAGTTGTTGCAATGAGCATTCTGTTGCTCCCAGAACTCTACATGCGAGCAGAGACGAGCCTATCCTACAGGATTGAGAGCAGACATGTAAAATAATATTCAGAGTGACCACTGAGTCTGGCTCAGCTCGATTACACAATAGGAGTTTTTCACAAGTCTCATAACGTGAAGCCAACTTCATCATAAACCAATGTGCACAAATTTTCATATGCACAGGGCTTGAGGGCTGGGTTTGCTCCAACCCCTCCTTTTCCAAACAGCAGAGTTAAGTACACAGAGGCTTTCCCCAGAGTCACGCAGACAGTCAGGAGGCAACGAGCATCCTCTGCCCTGTTCCTATGGGTTTCTCCTTCCAGGGACGCAGCTTCCTGATGGCTGGTAACATCTTCCAATCTTGAATAGTTTAATATTCAAAATCAATTCCTCACTGCTTGCAGCCAGAGGCCATTCCTCAAGTGCTAACTTATGCACTGGTAAGAAATTATATGGCTGAAAGCACTTGCTGCCAAACTAGAAGACTGCCCGATTGTCCTCTGACCTTTACGGCACCCACGGCCACGCAGTTACACTGTATACACTAGTTAGTTAGATAGATAGATAGATGATAGATAGATGATAGATAGATAGATAATAGATAGATGATAGATAGATAGATAGATAGATAGATAGATAGACAATTAGACAGACAGAAAGACAGACATATAGACAGACAAATAGGTAGGTATAAAATGTTAACTTCCCCACCACAGTCTTCATGAGGCTTTAGTTGCCTTACAATGTCTACATACTAGTACTGCTATCAACCGGGCATTCCAGGCCAAGGTGAGGGGTACGGGTAGACTTGGCCCTCACTCAGAAAGCCTAAACCTACACCCCTCCTTATCCTCAAGCCAGCAGATGCCCTCTATTGAGCACCCAGTAAAAGCTCATGTTTTGTAGTACCCTCTCCTCTGTCAAGGGTAACAACCAGGGGAATGGGCCCTTTCCTTCAATGACTTTATCCTTTTAGATCTAGGGAGTTGAAGACTCCCAGCAGGAGAAGAAAAAAAAAAAAAGCTTGTGGGACAGAGATCTTGATGTTCCTTCTGGAAGTTTGGAGATTAAAAGCACGAAGACTCAGATTTTTTTCTTAGTTTTTGAAAGCTGTTAGCGCTTACCTAGTGGATGTGAATCATGATGCTGCCAAGCATAGTATGTGTGGAGTGGAGCCGCAGTGGCCCCATTCCCAGATGAGGAGACTGAGGCATGGAAAGAAAAGGCCTTAGACAGACAAGCAAGTGGCAGTATTAAGAACAGAAGTACGTGGGTGCATTTAGCCATCTGGCAAACCACCTCCCTCCTTCTGACTCTGTGCATACAGTTTAATTCACCTTTGGCCTTTGGGGTGATTATTTTTTGAACTTTATTTTCTCAAGAGGAGAGAGAACACGTTCGTCAGCGGCTATCAGGGAAACAACAGGTTGTTAGGTCATTGCTGATGGTTTCATTTAAAAAGTAGCTCCATTCTGATAAATAGCGTTTGAACCCTGTCCCCACTCAAGACGAAACCGTGCCATAACTTCCTTCCCACCCCTTACCCTACAAACCCCTCTGGTCCTCACATCCATCTTCCTAAGCTTCCGTTTTCCTAAGCTTTTCAACCAGCGTTGTTTCTTTGCCCTTTTTTATCCCGCTTCAG
Seq C2 exon
ATTTTCATGATCAACCTCAAGCGCAGGAAGGACAGGCGGGACAGGATGCTGCGTACACTCTACGAACAGGAGATTGAGGTCAAGATTGTGGAGGCCGTGGATGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028207:ENSRNOT00000030109:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=11.1)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.8=100)
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:
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]