RnoINT0040556 @ rn6
Intron Retention
Gene
ENSRNOG00000028207 | Colgalt2
Description
collagen beta(1-O)galactosyltransferase 2 [Source:RGD Symbol;Acc:1304702]
Coordinates
chr13:69862463-69865833:+
Coord C1 exon
chr13:69862463-69862573
Coord A exon
chr13:69862574-69865715
Coord C2 exon
chr13:69865716-69865833
Length
3142 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ATTGTGAATTCTTCTTTCAGGTC
3' ss Score
10.39
Exon sequences
Seq C1 exon
GGCAGCCACCGATCACAACGTGGACAATACAACGGAGATACTCAGGGAGTGGCTGAAAAACGTGCAGCGTCTGTATCACTATGTGGAGTGGAGGCCTATGGATGAGCCAGA
Seq A exon
GTGAGTAACGGGGAGAGACGGAAGCTCTTCTCCCTCCTTTGCTCCTTCTCCAGCCATCAGAGCTTCCAGCCCCAGGGGGGTGCACGAGGATTTTCACTGCTATCCTTTCTGCATCTGAGCTGCAAATGTGGCCTTTTCTTCTATTAATAGATCTGCACATTTTCTGTGCTCCTGGGCTGCCAGCCAAGCTGTTGTCAACAGATTATAAATTATAATGATGGTATATGTTTTAAATATTGATTCTATTTATTGCTCTATTAGGATGGACTGGTTTATTTTCAAGAAATCGTGGTGAAAGTTTATAAATCTTCCGTACATACCTTACTTTTAAGTTATGTCTTGAAGGTTATCGCAAAGCAACCATTCAGGGCGCTAACTCACTCTGAACTGCATGGTACCTGTCATATAATGTGATTATTTAGCCAATATTCTAGTGATGGATATATAGGCTGTTTCACTCTTCACATAGAAATTTCTTAGTCATTTCCAGCTCCAAGTCAGCCGCACACACTAATGTTAGCCTCGATTCTCTTGAGAAAGTGCATTTATAGTTAATAAACAAGTGTAGATACAGAGAATATTACATATTGGTGGTTTTTTAAAGACTGGTTTATGGACTGGAGAACAGACGATCCAACATCTGTCTGCATGCTAGACAGCCAGGAGCTTCTCAATCCCTGAAGCTGTAAGCCTTAGGACAAGGAAAGTGAACTTACAGCCGCAGCTGAAGGCCTGGGAACACCTACAGGCTTATTTATTTGCAGCGCCATTGGAAGATGGAAGGAGCCAAAGGCGTGGTAACGGGAGTCAGCGCATGCTCAGTAGCGAGTCTGCTTGTGCTGTCTGGCCTTTCCCTCTTTTGACCTTTGTTCTGCCTAGGATCCCATCTATTACAGTGTCACCCACATTTAGAGTGGGTTTTCCCTAACCCTGGCGGGTCCCCGTGCCAGTCATCTCTAGAAAGGCACACACAGACACACACCTGCAGTTTATCGATCCCCTTGGTGTCTCTCAGGCCAATCAAGTTGGAGTCGTCAAGATCAACCATCACAGCATCATACCACCAGGGAGGTCTTCCTAAGATATGAGCTTCATTTCTTTATATTACAAAGACTCAGATAGATCTCGTATACATACAGGACAAAGTCCAAACCCCTGAGACATACATCCAAGATTCCCACATTTCCTGCTCTTCCCCGCAAAAAAATACACTCTATCCACAGTGTCAAGTTGATTTCCAACGCCCACGTCTGAGGCACATCCTGGAAGTGTTTTTCTTCATTGTAACCAGCTATCATCCTAAGTCACAGACGCCGGAGAAAGGGGCCATTGTGTTCACGTGTAAAGAACTTTTGACTTCGATTGCTTATTTTCTATGCTGTCCTTTTGACACAGTACATTGAGCTAGCCTTAATTAACTGTGATTTATTCAAGCTTTTCGGAATTAACTGTGAGCTTTTGGCAAGGGGTACAATATACAAATGCTTTCTATTTCCCCCATCTCTGTATTTTTAGAAGGCACCAAATCAAAACTTGCTGGATGAACACATAAGTGAATAAAATAAAGAATAAATGTATTTTGTTCCCAAGGCAACTATGACTCCAGGTTCAGGATTTATACAAGTTGCAATTTCTGCACAAGAAAAGCCATTTATTAAAATCCAAATGTATAGAAGAATAATATCAACAAATGTTATTGCAGAATAAATATATTCTTCTAGACTCTGTCATATACATATATAAACACACATAATAGTTGTATATATAATATCTAAAATCCAAGTCTATGGTCTACATATTAAGCAAATTTATCAATTAAGTTTGAACACTATAAAAGATTGTAAACTGCCCTTGGGTATTTCTTTTTTCTTTTCTTTTCTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTTTCCGGAGCTGGGGACTGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCACTGTGCCACTGAGATAAATCCCCAACCCCCCTTGGGTATTTCTTAGATGGAATTTAGCCTAATTTTTAAAATATCATGCAAAAAGACTTTGTGGCACTTTCCAGATATGTTCTCTGTAGCCAGATATTTACTTCATATATCACATGCCAAGGTCAGTGTGAAAAATATTTCATAAGGCATTATTTTTGGCAATATAGTCAGAAAAACAGGAATTTCAATAATTTCCACTGAAACAGTAATTGAGGAAGACAATCCAGAGAATTCCTGGGTTGTACGTGTTTTATTTGTATAGTTACAGTCTCAGTGTTTTGTGACTTTTCCTTTGTCAAGGCAAACATACTGCCCACACACCTCCAAGATCGTGAAATGGTGGCCAGCTGGAGGGACACTCATGTCCGCCTCAGCTAAGAGCTTTCAGAAGGATCTAGAACACGCACTGAATCATTTCCCTTTGCGGCCGTTTAGGAGACTAAGTCTAGCTGTCTCATGAATGTCAAAAGAAGTCTCTAGAACATTGTGTGTCTGCTCTTTCTCCTCACAAGACAGGTCAATGTGTTAAACTTTATTAAATCGTTTACTGAGATTTCAACAAGTAATCTAAGCCTTTGACTTTCGTAAGATGCTCATACCTTCACCCTGTACTTTCATACTTGATAAGATATATTAAGATCTAAGAATATAAGCTCTGGGGAGTAACTGCCTGGATACAGTTTCTGGTGTTGTCATTTATTGTAACATTAGTCACTCTGTGTCAGTATTGTCCTCTTTGAAATGGGGAAAATAGTAGGATTACTTCATAAGGCACTTATTAGAGCCTGCTGAAGAAAAGCCAGGCACAGCAGCTATTATATACTTTATAATTAGAAGGCTGGGGCAAGAGGATACTTAAATCTAGGAATTCAAGATCAGCCTCAGCAACATAGTAAGACCTCCCTCATATCAAAGAAGAGGAGGAGGCCATAGAGGAAGAGAAGGAAATCCCACTCATATACTTTATGGGAAACAAATGTCTTAATTTCTCATTGTTCCAGTCTGCTTATCTGTGATATAGAGGTGATGCTTCCTGGTCTCTTGTGCCCGGTTCCTAGAGTGACGGAGGAGTCATTGCACCGAGGGCTGGGCTGCATCCGTGCAGATGCTCAGTGATTGTGAATTCTTCTTTCAG
Seq C2 exon
GTCTTACCCTGATGAAATTGGACCAAAGCACTGGCCAAGCTCCCGGTTTGCTCACGTCATGAAGCTGCGGCAGGCAGCCCTTCGAACTGCGAGGGAAAAATGGTCAGACTACATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028207:ENSRNOT00000030109:2
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=0.075
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(30.6=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(32.2=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]