GgaINT0046086 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:601473-603140:-
Coord C1 exon
chr7:603131-603140
Coord A exon
chr7:601685-603130
Coord C2 exon
chr7:601473-601684
Length
1446 bp
Sequences
Splice sites
5' ss Seq
AAGGGAAGA
5' ss Score
2.92
3' ss Seq
GACTTTGTCTTTCTTTCCAATAG
3' ss Score
0.48
Exon sequences
Seq C1 exon
GAGGATGAAG
Seq A exon
GGAAGATGAGAAGGGAGGTTATATATTATGGACCTGAGTAGATAAAATGGGGGAAAAAAGAAGTAAAAAAAGCATGAGAAAAGAGGAAGCATGTAGAAGTGGGTACCTGCCACAGAGCATGGGTACGGGTATGGAAATAGAGTCCATGAAAGGCAAAGAGAAGGAAAAACAGGATAAAGAGAAAATTGGACCAATGTGCTAAAGCGGTAGTGGAAAAGTGAAAGGTGCTGTATGTGAGAAACGAAAATGGGGCTGCATAACTAACACTGGTCTGCTGCAATATAGTTTTGGACTCAGTCTTGTTCCATTACAACAACTTGATGGCATTCAGAATTTTTCATGTGGAGCCAGAGGTAATTTAAATGTCAGAGCTCTGAATTATGTATTCCAACATCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCTTTTTGAATAATGGTATGTAGTAAGACAACTTTTTGTAATAACATAGCTTTATGGATGATGTACATACACAAATAGCTATTTCTCCATCATTTTGTGTTTGCAAAGTTAGTTTGAATCATTCAAGGAAAGAATTTCCATTTATCAAAGCATTCACTGTTACCTGTGTTTGCAGCCTGAGACTTCTAATATTTCTACAGAGCTTAGAAGGAACTGAGATAACTTTGTGGTGTTATTTTTATATTGCATTATTAAATGATGAGGCTTTCTGGATTTGGTTTCTTTAAGAATATACACACCCAAAATTTAATATTTAAAGCTGCTTTTCATCATTCTCTTCAAATTCATTACAACAAATTTGATCAGTAGAATAGCTGTTGGAAGGAATTTGCAAAGACATGAACATTACAGATGAACAGTTTTCAAAAAATACAGAAACTTGCAGTGTTGAGCAGTCCAGATGATAAGTATATGGCAAACTATTTGGGCAATTAATGTGAGTATTCTTACAGATCTATTGCATATGTCAGCTTTCAAAAACCATTTCGAAAAGACTTGATGCTCTCTATTGATGTAACATGCTAGCAATGAAAGATCATGCTAGACAGACCACTTATTCTGCATCCTTTTGTAAGTGCTCATGTTCGCACAGTGATGCCAATGATACACTCATCTGAGAGATTTAGCACGTTTGCTTTTTATGTGCAGCAGACAATTCAGTTGCTAATTATATAACAATCCTGTCTGACGCTGAAATTACTCGAAAGATTATTACAGATTTAATTAGGCTTTGGCTCAGCTCCAGGAGGTTTCTGTTGATGTCTATTCATAGATTCAGAAAAGACTCTGCAATTACTGTAACAGATCCTCACACTGCATGAAGAGAAGCTTTTAGCCTTTTACCACACATAGGTAAACTATATTGCAGCAGAAAACAAAATGATGTTGTACCTCTTTGATTTAGAAAACACGCCTGAAATAATACTGAACCTGACTTTGTCTTTCTTTCCAA
Seq C2 exon
TAGCCCTAGGAGGATGTACCCATCTTGGGCAGGAATATGCTGACAGGGATGTTTGGAAACCAGAGCCATGCCAAATCTGTGTGTGTGACTCTGGATCTGTTCTCTGTGATGACATCATCTGTGATGACCAGGAGTTAGACTGTCCCAACCCAGAGATCCCCTTCGGAGAATGCTGTCCAGTTTGCCCGCAGACAACACCACAGCCTACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:3
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=0.028
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009313=VWC=WD(100=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]