GgaINT0045558 @ galGal4
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr7:498896-500674:+
Coord C1 exon
chr7:498896-499120
Coord A exon
chr7:499121-500660
Coord C2 exon
chr7:500661-500674
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:ENSGALT00000003954:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=WD(100=80.6)
A:
NA
C2:
NO
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]