GgaINT0045558 @ galGal3
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
NA
Coordinates
chr7:503185-504963:+
Coord C1 exon
chr7:503185-503409
Coord A exon
chr7:503410-504949
Coord C2 exon
chr7:504950-504963
Length
1540 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
TCTTTTGTCCTTTTTATTAGGCA
3' ss Score
9.06
Exon sequences
Seq C1 exon
GAGAAGATGTTGAAGAGATTGCCTGCACTCAGAATGGCCAGATGTACCTGAACAGGGATATTTGGAAGCCCTCACCGTGCCAGATTTGTGTCTGTGACAACGGAGCTATTCTTTGCGATGAAATCCAGTGTCAAGATGTGTTGGAGTGTGAGAACCCACAGGTGCCCCCAGGAGAGTGCTGTCCAGTGTGTCCCCATACCGCACGTGATTTTGACCCTACCGTTG
Seq A exon
GTAAGCTTGCTTCCTAGTTCACTTTTTGAAAGGTGAGCCGGTCAGGCTGGCCTTGAGAGTGAAATCTGCTCTGCTGCTGTGGCTCAAATTGGAACAGGGAGACTGTTGAGGCGTAGGTCAGCTTGAAGTCAGTATGCAGGAAGATTAGTGGTGAGGTTCAAGTTCTCTAAAATCAACCCAAACAAGTAGGAAACTATGGGTACTGAAATTTCTAATAGTATTTCCATGCTGAATATTTAAATCTGAGGACAGTAAATACTGATAAGCTAGTTTCTGACTTCGTTTGCACCTGAACTGACTCTGGAAATTTTCCCTTGACTGTGAATCTGATAAAGTCAAAAGGCCTTAGAACTAAGAGGCTGATCTGAACTCTATCCTAATGTTTTGAGGTTGGTTTTTGATTCTTATGGTGATTCTTCTGGGACTGAAAGAATAGTATGCTAAGACATAAAATAAAATAAGCACCTGCTTTGATAAAATGCTTAATTTCAAGCTTCTCCAATAGCTGAAAAAAATTATATAAATATAAACAGTCAAACGTAGGTACTATTAAAATGCTTCCCCAAAATAAAATGATGGACAGACGATTCTCTTGTGAGACATAAGGAAAAACACAGTATGAAGAATATTATGTGCCTTCTGTGATATACCTTGAAGATGATATCATTTCCAGTTCATTTTTTCTTCCAGAAGAGACTTGGATGAAGGAAATCCCTCCAAATACTTTCTTAAGAGAAAATCTATTATCTTGCAATAAATATTCATTAATAAAGTATGGTGCATTTTTAAACTATTCTATATATAATAATTAAAGCAGTTTTTTTTTTTTTACAGGAGACGTGGTTAATTTTTATTAACCTAGTACAGGATTAAATGATAATGAGTGTGTAGTATGGGCATGCGTAACTGAGCATTAAAGCAAGATGTGTCAAGCATCAATAAACAGATGGAGCCTCCTGCTGTGTTTTGAGAGGCATTAGGCCAAGGGCAACAGGTACACTCAGAAGATAGAAGAACAGTGTGGAAACATTGCAGAATTCCTTACTGTAATTGAAGACATTAATAAAATATTTATCAGAAGGATTTTTTATGGATATGAATGTAGCTCTATAGCTCTGAACTCAGGCGCACATAATATTGCAGAAAAAAGTGTGAAAGATCCTCCAGTCAGTTCTATCTTTTGAAAAATACCATGTTGTATGTTATGGGTTCATAACATACGGGTTCTTGTATTCAAGTAAGTATTAGAACTTTCTTTAACTGCCAGTGCTAAAAGCCTTCTAAGAGTTCCCCAGAGGATATTCTAAAGTGCTTTTTCTTATTCTGTGCAATGCTGAAAAAGGCTGAGGATCAGGAGGCATCTGATTCCTCAGACTTGAACAAGAGAGTATGTGTATCCCTGGTACCTTCTCCAGCTCCATGTACATCCAGAATCCTGTGTGGCTTTAGCTGTAACACCTTCACTCAGCTCTTTCTGTATCTGTCTCTTGAAGTAAAAATATTAATTTATTCTCTTTTCTTCTTTTGTCCTTTTTATTAG
Seq C2 exon
GCAGAGGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002509:ENSGALT00000003954:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=WD(100=77.8),PF0139113=Collagen=PU(4.5=2.8)
A:
NA
C2:
PF0139113=Collagen=FE(9.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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]