GgaINT1003512 @ galGal4
Intron Retention
Description
NA
Coordinates
chr4:51074538-51076359:-
Coord C1 exon
chr4:51075476-51076359
Coord A exon
chr4:51074798-51075475
Coord C2 exon
chr4:51074538-51074797
Length
678 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
AGCACTCTTACCTTTTTCAGAAT
3' ss Score
8.09
Exon sequences
Seq C1 exon
TGGGGAGCTTCAGCTGTTCCTGAATATCTGGTTTGTGGCTGAAATCATAGATATTTTCATTCCTCTTTGGGTTTGGAGGATAATACTTCATGGGTGCACATCATGCTGGATCCATGCTTTTTTTTTAATCTCTGGCTTGGATTGGCATGTTGCTCTTTGCCTGAAGTGACTCTCAAGGTTCATTTGCAAATTGCCATTTGTGCAATGTGCAGTGCACAATTGCCTGGTTCCAAGCAACAACTTACTTGGTACATGCATGTAGTCTGCATGTGTGTTTAGTAAAAAACCATGGCTTGGACAATTGCCATAATTCATGTTGTGTCCTCATGACAAATCACCTGAAATATTTGAGTTGGCAATCCCTCGGTTTGGGAATTGTCCTGTTTGTATGGTGAAGGGTTTTGATTCTTGATTTGGGCTGTTGATGAACCTCAGCCTGAATTGTTGACCATCATGGTTTACCATGATAGTCAGTTGTTCATTCAGTCTTCTAACAGAATGGGTTGTGCATGAGGATCTCTGTTTTGGGGACTGGTGGAAGGTATGTTTTCATATTGATGATATACTGTTGGAGAACCTAGTGGTGTGTGATTTTTTACATCTATTTTCCACAGTACCTACAGCCATTGGCAGGCATGTTTACTAAACAGAAGAGTAACTAATACATATTTTTTTTCCTTTTTGACAGTCTGCGGGTTACGGCAGAATAGATCAGTCAAATCAATAGCAAAAGCAACATCCTTGAGAATAGTTGGAGGATTGTCTTCTGCAGAGACTGGGGATTGGCCATGGCAAGCTAGTTTGCAGTACAATAACGTCCATCGCTGTGGTGCAACGCTCATCAGCAATACATGGCTTGTATCTGCCGCTCACTGCTTCAGAGA
Seq A exon
GTAAGTTCCCAGCTTAGAGAGAATCTGCAGCAGAATGTGACCCGCTTGGATCAAGCTGTGGGGCTTTCCAGATTTACAACACACCCCTAACTCTTTCCAGGAGAACAATTTTCTGCCTTAGAGGAGAAAAAAAAAATCAGGGATGGGGTAGACCCATCACTTGTTTCTAAAGATGCTTTTTCACATTGCAATTAGGTTGCTGCTGCTGCAGGCTGCTACCAGAAGTTCTAAGCCCAGATTTCTACCTTTGCATTCAGCCATGCACTCTCCAAACTTTTTGTTTCAAGTGCAGCCATTGTGAAGCTGGAGGACATGTAAGATGAAACAGCTGTTTGAGTGAATTATTAACATCCAGAAAGAGTAACAAAGATGATTTTTCTAACAGAAGAGCTTTTTGGACTGATTACGTACACCCTGTGTCTAAACAGTGGCTGGATCAGGAATGAGAAGTTGAAGGGAGTAGGAGACCATGGTTGAGAAGGGAGTGCAAGATTGCCCTTTTCTAGCAGCAGCCCACAATTACCTGAGGCACAGTGTTAATGGGAAGTGATGGATGCCTTAAGAATCTAGTAGGGAACTGGCTTGAAGGGGTTATAAGATAAAGGTTCTTGAGAAGTTTAATCCTGTGAGTACTTGTTTTTACAGACAAATATTTTACAGCACTCTTACCTTTTTCAG
Seq C2 exon
AATGAGTCACCCTCACAAGTGGACTGCTACTTTTGGAGCTCTTTTGAAGCCACCAACTTTGAAACGATCAGTCAAGACCATTATTATTCACGAAATGTACCGCTACCCAGAACACGATTATGACATTGCACTTGTGAAGCTCTCTAAACAAGTTGAGTTTACAAGTAACATACACCGCGTTTGTCTGCCTGAGCCATCTCAGACTTTTCCATATAATATTTATGCTGTCATCACAGGCTGGGGAGCGCTTACCAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026134:ENSGALT00000043388:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0008921=Trypsin=PU(46.6=95.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCATGGCAAGCTAGTTTG
R:
CATTGGTAAGCGCTCCCCAG
Band lengths:
358-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]