GgaINT1010078 @ galGal4
Intron Retention
Gene
ENSGALG00000008141 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chr4:13903883-13905154:-
Coord C1 exon
chr4:13905074-13905154
Coord A exon
chr4:13903946-13905073
Coord C2 exon
chr4:13903883-13903945
Length
1128 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TTCCTCCATTTTTTTAACAGGGT
3' ss Score
10.11
Exon sequences
Seq C1 exon
GGCGAAGCGGGTGAAATAATTACATCCTTGCTGCCAGGACAGAAGGGTGACCAAGGATTTCCAGGTCTTCCAGGGATACCT
Seq A exon
GTAAGTTGAATAAAGTACTGTTAGACTATGTTCTACCAGAAATATAAAAGGAAGGGTATTTCAATGACAGCACAGTTGGAACATTTGGTGCTAGGGAATCCCTATGTGTACGGGAAAGGGCAAGGCTCATATTTACTGTACCTCTAGTTTACACTGTGAGAAAGGTTTCAAAAGTGCTTCCACATTGCTCTTAATAGGGTAGCCACAGAGGAGAGAGAAGTCCCCTACTCAGGCAAGCAGTGTCCAGCAGACAATGGTTCTCACAGTTACTGACTTGCTTCACTATTTCCCCTTCCTGTTGCCACTTCCCAGATATGCTCTGTATTAATTCTGGAGCTCCTTTTCCTTCTTTACTCTGAGGTAAAGTGAGTAACAATCTGCACTTCTGGGCTGTAGCCGCTGTTTTCACTCGGGGGAAGAGAGGGTAATGTCTCAGCTGTTCTCCTCATGTTGTTCCCCGTGAGCAGTGTTTCTGTTCTCCCAGCAGTCTTCTGTGAAAGCAGCTAGTGACTCCAGGCCCTGTGCTTCCCCTCTGAACCATTTATTACTTTAGTGGAAGAACAAGGGGAGCAGAAAATGAGTCAATCAGTCTGTACTGGACAGAAGCCAGAAACTCCCATTTCCTGGTACAGAAAGGCAAACCTCAGGCTATTCTGACCAGACTGAGCCTGTTAGCATTTCTGTTCCTCTGATCTGTGCTTTCCTATTGTCTGTTTCTGGATGGCAGGAGTCACAAATACAAAGTGTTTTGTTGTTCTCTCTCAGTGCATTCAAGAGAAAGAAAGAACAAAAGTAGTTCAGAACAAGCAAAAAAGCATTCCTTTATCCAAGCCAAAGAGAAGTATTGATATAGAGAGCAGAACAGTCTTGGCACAGCATACACTCCTTTAGGCCTTTCATCTAGAACAAATTGGTAGGTTAGTGGTCAGTTCCTTTGATTTGACACCTATAGGATGCCAGCTGTGCGTTTGGTGTTTATTTTTTGGTTTGTTCTTTTTTTTTTTTTTTTTACCTTGAAGGTCTCTCATTTATCCCGTTGTTGTTGTTGTTGTTTTTGTTTGTTTGTTTTTTGTTTTCTTTTTCCCATAAAAAGTGTCTCTCTGATAGCTTCCTCCATTTTTTTAACAG
Seq C2 exon
GGTCCACCTGGTTCCATAGGAATACCAGGTCCAGTTGGTCCTCCAGGGCCCCCAGGTTTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008141:ENSGALT00000013221:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(10.8=29.6),PF0139113=Collagen=PU(28.8=63.0)
A:
NA
C2:
PF0139113=Collagen=FE(33.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
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]