GgaINT0106730 @ galGal3
Intron Retention
Gene
ENSGALG00000016803 | ST6GAL2
Description
NA
Coordinates
chr1:139946322-139951719:-
Coord C1 exon
chr1:139950774-139951719
Coord A exon
chr1:139946420-139950773
Coord C2 exon
chr1:139946322-139946419
Length
4354 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
CCCATTATTTATGCTCCCAGATT
3' ss Score
6.61
Exon sequences
Seq C1 exon
ATGAAACCTAACTTGAAGCAATGGAAACAACTCATGCTGTTTGGAATCTTTGCATGGGGTCTGCTTTTTCTAGTGATCTTCATCTATTTCACAGACAGCAACAGTGCTGAGCCAGTTCCCAGTTCCTTTTCTTACATTGAAACGAAGAGGCTCCTGCCCCTGCAGGGCAAGCAGAGAGTCATCATGGGAGCCATACACGATCCGTCATTCTCTGAAGCCATTGATGGGAATGAGGTACTCCTTAATGAAGATCTTTTAGATACATTTAAATCAGAGACTGGAAGTATTAAGAAATGGACTGATTTGGAAGATGCCTTTAGAAGCGAAGATGAGTTTTTTCCATCCCAGATAGGACGAAAGTCAAAAAGTGCTTTCTACCAAGTGAACGATGATTATTTATTCGCTGCTGGTCAGCCTATGTCACACAACAGCTTCCAAGAGATAGCAAAATTCATCTCAGCCGATGAGGATAATCCAAAAGAAAGTATTTTACAGAACAACTGGAGCCGTCAGAGGAGAATGAGGAGAAGGAGCACAAAGCACAGAAGAAGCCAGATGCTTGATGAATCTGATGACTGGGATGGGCTGTATTCTACAATGTCGAAATCCTTTCTATACAAGCTCTGGAAAGGAGATGTCTCTTCCAAGATGCTGAACCCTCGACTGCAGAAGGCGATGAAAGATTATTTGAGCACCAATAAGCATGGGGTGCGGTTCAAAGGGAAACGAAACTCGAAGCTGACAGGCGACCAGCTTTTCTGCGAGCTGAAAGAAAGGGTGGATGTGAAAACAATAGATGGCAAGGAAGCTCCCTTCTCCACTCTTGGATGGGAGAAGCACGTTCCTCAAATTCCACTGGGCAAATTGTATACACATGGCTTTGGGAGCTGTGCCGTAGTTATGTCTGCTGGTGCGATACTGAACTCCTCTCTAGGGGATGAAATAG
Seq A exon
GTGGGTGAAATGCATCTGTTCATGTGCATAAGTATGTACACACGCGTATTCACGTTTGTCTTTCAAAAGATTTATACTTCTCAAGCATTGTCCTCTAAAGGATCTGGTTAATCTCTCTTACCAGCATTATGTGAGTGTGAGCATACAGATTGCAGCGAACCTGTTCCCTTTCAGAACAGTATAATTGAAAGGAAAATCCAGCCTGAAGTCCTAATTTGATTTAATGAAAACAGTGATGCCTTCTTGTAGTACTACAGCTTGTAGTATAAAGGAGGCACCGGTTTCATCAGTTTTGCCGTATTTGACATTTTGCTGCAAACTGTGTTCATTTCTTCAGCAGATGAGAGCCACTTTCAGGTTTCATTCCGAAAAGCTGTTATACCTGTCCATATTTCGGTGTGACTCATCAGGAAACTGCTTGTGGCTTTACTGTTCCAGGCTAAACTTTGTCTCCGTGCCAAGAAGCAATTGAGCATAATCTTAATCTCCTGCATGTTTACAGCTCACAGGCAAATAGAATTCAGGCCCTTCAATAAATTCATGCTCCGAGATCAAGTCTGCTGACCTCTTTTCTAAGTGTGAATTTAAATGAGTTCAAGTATCTCTTCCGATTGTTTCTCCATTGCTGCACTGAGTCATTGAGATGTCAACATTATACAATTCCCTGCTTAAAGCTGAGGGTTTTGTGTTGGCTATTCAAAAAAGAATTGTGGAGCCATAAAACTAACCCGGGTCAGTTTTCGTTTTGCCTTTTTTTTGTTGTTGGCTTCCCCTTCCCCCCCCCCCCCCCCAGATTTAGTGTTACAAGTTGTATTAACATCTCAGTAGTTCATTTTAGTGCTACATGTACAGTATGCTAAGAGCATTGAAAGAAGGATGAAATGGGTGTCTCAGGCTTGCTTCTAGAGCAGGAAGAATTATCTCCTTTAGCACTACAGAAACCTTTTGATGTGCAGTCTAACCCTCCCATCTTCCACAACTTCACATTCCAATACCTGCTTCATCGCTCTGTATCATGTCTTTGACACAGACGGGTTTCCTTTACATCTTTGGGATATTTTAGAGCTGCTATCATTATCAGACTACTCTAATAGGCTTCCAGCACAACCCAGGTGCCCTGATGTCCTACAGCAAAAGTCAAAAGTCAAACTAGGATAACCCATAATTTCACAGGAAGGCTCCACTGATTTAGAAATCTCTGGTATGAGGCAGCTTTGCAGGTTGACCATTCTCCAGTGTATTACTGTAGAGTGAAACAAGATTTCCTTTTATCAGTGTTTCCCACTGCATCCAGTTTATGCAAGTACAAATGAGTGATGTACTGGAAAATCCATAGCACACTGTGGTTTGCATTAGGGCAGAATGCGTTGTGGTGTGCATGTGCTTGGGTGCAGCCCAGGTGTGGGATTTGGGATCCTCTTGCTCCTGCGTTTCCATTCCATCATAAAAACTCACGGCACAGAAAGCTTACGCTGTTCACTGCAAAAGAACTTCTGGTTTAACTGGAAATGATTGTGATGCTGCCTAAAAGGAGGAGATGCTGCTTTGTAAGACCTACGCTAACGTTTTACATCTCCTGCCTGCCTGCTTGTCAGGAAAGTGTGTGGGGCAACAAGATTCACAAGATTTCAAAAAAAGATTTTTGTAAGTGTTGTGCAGGCTGTGAGCAGGTATGATTGACTGAGCAGAGAATTCAGCTCTGAACTGCAGGGCCTGACCTTAGACACACAGGTCCTTGTGGTCACTGTGACTCCTTGGAAGTGTCCTCATTGTCCACAGAGGCATGGTAAAGTCTCTGTCATTGGAGAGTGGGGAAAAACACCCCATGTGTGAATTCTGGTTTGGGGACTATGCGTTGTATTGCCTTGTTTGATGGAGTTGCTTTATCGAAAGGCTCTTACTGTCTACCCTCCTGAAAGAAAAATAGGTGTAAGAAAGGAGCAGCGCAGGATCATTCGCTCCATAGGCCTTTAGCTCCCTCTTCTGTGATCCTATTAGAAATGCAGACAAAAATATTAATGTTTTTTTTTGTATCCCTTACCCCATATTTCTTTCCTAATGAAACTAAGCGTGGAAATACATGCAATACCACAAATGCTCCCAACGTGATCGTGCTACTAAATGGGATACCCAATTATTTTGGCAAAATGAGAAAGTAATGGGGATCTATGATCTAACCTCAAACGTTTTGCAACTTTGAAAGAGTTATTTTTGACCACTTACTAAGATTAAAATCACTTAATTTAAAATCAATTATTATCAGTGTTTGGCAATTATTATCAGTGTATCCTAATCAAATACTTTCCGATGAAGGAAATGTTTTTTTTCATCTTGGTATGAAAAAAACAGAGTGAACAATCTTGGAAATGCAGTACACTGTGTCTGAGTTAAGTTGTGAACCATAGAGTTCCCATTTCCTAAACCAATTCCCAGCTCTCACTCAAAAGATAGTCAAAAGTTGTCTGAATTTATTTTATATTTTAAATTCATAAGCAGATTTCGGTTATAAAGGGCTTTTGTTTTTCTTTTCCATCTCCAGAAATGTGGAGTACTTGCCACTTTGATTGACTCAGTGTCTTCTAGCTTCTCCACAATCAAGATAATTATGTTTAGGCAGATGAAGGTTAGGTGTTGGTGTGTGTGGGGCACCTGCACAGTGACATGGAAGAAGTTTCCACTCCTTAGTAGCTCCTGAGACCCTGGGCTTAGTGGATGCTCTGCAAAATCTCTCAAATACAATACATTCAAACAAGAAAATATGGCAGGGAATGGACTGCTGATTTCATGTCATACAGTATTTTCTTGTCTGGAGTACAAGAAGTGTTGAGTGAAGTTGGAAAAGGATCGAAGACAGGAGTTGATTAGTGTCAGACCCAAATTTCCTAAAAACGTTAGTTATATTTGGAAACTTCTGCCTACTCCAGTTTTGAGCTACAGGTGACCACATTTGAAGTGACTAGAGATAAAGAACTCTGCAAGCAATCTGTGCGTATCCATTCTGGCCTGAATCATATTCCCTGCTTTAGTTGGTAGAAGGGATAAAAGTGAACAAGATAAGGGGAATATTGACAAAGGCGATGTGTTTCAGGAAAATGGGCATCATCTCACTCCTTTTGGGTTTTGATATCTCCTTAAAAAAATACACTGGATGGATAATAATCTTTTATCCAGCAGAGCATGGCACACAGTATCTACCCTTGACCCATACTTAATGTGTAGCTGCTTTCTGTTCTGCATGGCTCTGACGTCAATAGCTTGTGGGAAGTCTTTCACGGTTAACTCCATTAGGCCTTTGCTACCAAGGATTCTTAGGTTTCTGTGTGTGAGAAGATTTGTGGATTGAATTCCCTGGTTAGACTCTTTAAGACCTGTACCAACCTCGAGAATGAGTACATTTGATTAATAGGTTTGGGGTGGTCTGAAGATTTTTCAGGTGTTATGAAATACTGTGAAACAAAAGCATATTGTTGAGCACTGTTATTTATTTCAATATGCAGTTAGATACCCTTTCAATTAACATACTTTTGCATGGAGTAATTATTTGTAAGGTTTTGGGTTTTTGTTTGTTTGTTTGTTTGTTTTGTTTTGTTTTTTGCATAGAGTAATTATTTGCACCTCTCCTATGAAGAAAGGTTGAGAGACCTGGGCTTGTTTAGCTTTGAGAAGAGAAGGCTCCGGGGAGACCTCATTGCAGTCTTCCGATACTTGATGGGAGCATATAAACAGGAGGGGCAACAGCTGTTTGCAAGGGTGGATAGTGATTAGGACAAGGGGGAATGGTTTTAAACTGAGACAGGGGAGGTTTAGGTTGGATATTAGGAAGAAGTTTTTCACCCAGAGGGTGGTGACGCGCTGGAACAGGTTGCCCAAGGAGGTTGTGGATGCCCCATCCCTGGAGGCATTCAAGGCCAGGCTGGATGTGGCTCTGGGCAGCCTGGTCTGGTGGTTGGCGACCCTGCACATAGCAGGGGGGTTGAAACTAGATGGTCATTGTGGTCCTTTTCAACCCAGGCCATTCTATGATAGATTGATTGTAAATTTTACAATAGAGATAGCAAGTGACTGTGTGTACTGGATGAACTGCTAACCTTTCCATGTGAATTTTGTCAAATAGAAATGTTTAAGTATTAAAAGCTAAATTTACAAGTGATGGTATTTTTTTTCCAATGGATGTCAATACTGTATGTCAGATGCAAGAGGATTTTTGTTTGCTTGTAGCAGAATGTTTATTATACTTAGAATACCAAGATCAGGAGAAATGTGCAAGTTTTAAATTTGTTGAGATCGTTTGTTTTATTTTAATGTTCAGTCTCATGAAGAAAAATAAAAATGACCCCATTATTTATGCTCCCAG
Seq C2 exon
ATTCTCATGATGCTGTTCTAAGATTTAATTCTGCTCCAACACGCGGCTATGAAAAAGATGTTGGAAATAAAACAACGATGCGAATCATTAACTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016803:ENSGALT00000027126:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF146321=SPT6_acidic=WD(100=17.4),PF0077713=Glyco_transf_29=PU(63.5=20.9)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(12.1=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]