BtaINT0062418 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009717 | FGL2
Description
Bos taurus fibrinogen-like 2 (FGL2), mRNA. [Source:RefSeq mRNA;Acc:NM_001046097]
Coordinates
chr4:44236254-44240215:+
Coord C1 exon
chr4:44236254-44236876
Coord A exon
chr4:44236877-44239337
Coord C2 exon
chr4:44239338-44240215
Length
2461 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTCTGTTTTCACTCCTTCAGTTC
3' ss Score
9.42
Exon sequences
Seq C1 exon
CGCAAAGATGAAGCTGGCGAACTGGTGCTGGCTGAGCTCAACTGTCCTTGCTACATATGGTTTTTTGGTTGTGGCAAACAATGAAACAGAAGAAATTAAAGACGAAGCAGCCCAGAATGCCTGCCGGGTGAGACTAGAGAGCAGAGGGAGATGTGAGGAGGAAGGCGAATGTCCCTACCAGGTGAACCTGCCCCCGCTGACTATTCAGCTTCCCAAGCAGTTCAGCAGGATCGAGGAGGTGTTCAAAGAAGTTCAGAATCTCAAGGAAATTGTAAATAGCCTGAAGAAGACTTGCCAAGACTGCAAACTGCAGGCTGATGACAGTCGAGACCCAGGAAGAAATGGATTGCTGTTACCAGGCACAGGAGCCCCAGGAGAAACTGGGGACAACAGAGTGAGAGAATTAGAGGGCGAGGTTAACAAACTGTCCTCTGACCTTAAGAATGCCAAGGAGGAGATCGATGTGCTTCAGGGTCGCCTGGAGAAGCTGAATCTTGTAAATATGAACAACATAGAACAGTATGTTGATAGCAAAGTGGCAAACCTCACATTTGTTGTCAATAGTTTGGATGGCAAATGTTCATCTAAGTGTCCCAGGCAAGAACAAATACAATCACTCCCAG
Seq A exon
GTATGTATAATAATGTTTTCTTATCATTTGTTGATGAATGTTATATAACTCAGTAGGATCTATAAACGTTAACCTGAGAAATTATGTTAAATAAAGGACAAATTAAAAGTTAAGCCTTTTATTCATCAAGGTAGTACAAGGGAAACTATTATCTTTCTAAATGTGACCACAGAAAAGAGATAGGACCTAATTACAAAAAAGTCATAATGAGTTCTGAATCCATTTTAAAGTACTTTTAAAGATCTTATTTGCTGACACCAGAGCTACACACAAACAGAAGTGGAGAGAATGTCTTAATGTTTCAGTGACTTTAACTTACTTATCTGTTCACTGAAGTATATGAAAACAGTAGAGTTAAGGCAGTGTTTGTGGTTGTACTCTGTTCGCAAATCAATTTTTTTGTGGTTGGGTGATTGCTCCTTATACAGCAACAAGAGACCTTTGAAAGATTTTAGCAAGTAATCTGCAGTTAATAATCCCAAACATCTAGTGGAAATAGGAGATTTTATGGATCGGATAAAAATACTTATATGGTTTCATGTGTGTGCAAAACTTTTTACTTTGAGACCTAGTGGCACAAAAACTATTTTATGCAGAGTTTTGGCATGCTACTGAGGAAAGGAATACATTCTTATTTCTTCCTTTCTATTACTAGAATTCAAGCATATAGCAGTAGAATCCATCCTCCCCATCCAGATTATTTGAATTAACTTTAATAAATATATGTTAAAGACCACAAACCTAACTACCCACTCTGTCCAAGAACTGCTGGCTGTGGCACTGGTTCCCCCAAACCCTGGTATTCCACGTGAGTTCCTGGGACCCTTGCTGATGGTCTTCTGAAAGCCGTCTCTGCATGAGTGTGACTTGAAGGGGTGTGGTGCCTGCAGCAGAGATCACGTTCCTTTGAAAGAAGCACCTCATGCATGCTCCATTCCCAGGGAATCAACCAGTGAAGGTGTTTGGGAGTTTCAAAGACCACTGTTGCTAATACTCCCAGCAGCCTGTATCTAAATGGACCCTGCACGTTGCAAGGCAACGTTCATGTCGTAGGTGGCATACCTGGGTGTGCATTAGATTGGTACTGCATGGCAATGTGCAACGACAAGAATAAGATTCTGCTATTTTTATACTAAAGTTTTGGGGAACTGTCTGAATATTCTGAGTTCTAAATACACATGAATATATTATTTGTGGCTCATAGTGGCTTGTATTAATGTATTAAACTTGCCTGATCTGGCAAGGATTTTTGTAAAAATTATTTTGGAGTAAATATCTCTAGTGGTTCCTACAAAGCCACATTATTTGATGATTATACTTATACTGAATGTAATCACCTATGGTTTCCTTCTAAAAACCAAACATGTGAAATGCTGAATATTTTCCTGGATAATAAATCAGAATAAGAATATTCATATATTAGTGAAGTTCTTTTTTAACCTGAGCTTCTTTGTCAAGCAAGTAAGATAAATGGAAATGTTGATCAATGCTGTATTTTAGAATTTTAATAAATCATTTGGAATAATCTTATAAAATGACCTGAAAGTGGAGTATATCAGCCTCTTTGCTGCTGCTGCTGCTAAGTCGCTTCAGTCATATCTGACTCTGTGCGACCCCATAGATGGAAGCCCACCAGGCTCTGCCGTCCCTGGGATTCTCCAGGCAAGAACACTGGGGTGGGTTGCCATTTCCTTCTCCAATACATGAAAGTGAAAAGTCAAAGCGAAGTCGCTCAGTCGTGTCCAACTCTTAGCGACCTCATGGACTATAGCCTACCAGGCTCCTCCGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTCCATATCAGCCTCTTTAGGTGAAAGGAAATAGAAGCCTGTGCGTCCTCTGCATGCATGGAATGCAATTCTAGGAGAGTTGGAATCATCTGAGTTTCAGGACTAAGGAATGAAGTGGTTACAGGGACAAGCTTTGCTCTCTCTTGGCTCTGCCATTTAAAGATCCTATGAAGTTGAGCAAGCCACTGATCCTTTTTGAGCCTAAATATCCTTTTTCACCAGCAGATTAGTAATACTACCTATGTCATAAAGTTCACGTGCAGATCAACTGTAAAAATGTCACCAAGTCTTTGGCAGAATCTCTAAGACACAAGCAGAGCCCTCACTAAATATCATTAAATTACTAAAACTATCACTTTTATTTCTTGTTGTTATTAGTTGTTGATATTGTCAATATTATTAAACCAAGAGGATGTTAGAGAACTTTGCCTGCTTTATAACATCAAGGTCTTGTTCTGAGCCTTTAATAAGCATTTGCTAAATAGGTTCAAGTAATTTAGCCGAGAAAGGTTTCATTGTCACCATTGATCAAATTATCAAACTGCTTTTGTGCATATCAAGAATTCTTTAGATGCTTAGTTTTTATTAACAAAATCCAATGCCTTTCTGTTTTCACTCCTTCAG
Seq C2 exon
TTCAACAACATCTTATATATAAAGATTGCTCTGAATACTACACAATAGGCAAAAGAAGCAGTGAGCTCTATAGAGTTACACCGGAGCCCAGAAACAGTAGCTTCGAAGTTTTCTGTGACATGGAGACCATGGCAGGAGGCTGGACGGTGCTGCAAGCACGTGTTGATGGAAGCACCAACTTCACCAGAACATGGCAAGACTACAAAGTAGGCTTTGGAAACCTCAGAAGAGAATTTTGGCTGGGGAATGATAAAATCCACCTTCTGACTAAGAGTAAGGACATGATTCTAAGAATAGACCTTGAAGACTTTAATGGTATCAAACTCTATGCCTTGTATGATCACTTTTATGTGGCCAACGAGTTTCTCAAATACCGTCTACACATTGGTAACTATAATGGCACAGCTGGAGATGCCTTACGTTTCAGTAAACATTACAACCATGACCTGAAGTTTTTCACCACCCCGGATAGAGACAATGATCGATACCCCTCTGGGAACTGTGGGCTCTACTACAGTTCAGGCTGGTGGTTTGATGCCTGTCTTTCTGCAAACTTAAATGGCAAATATTATCACCAAAAATACAGAGGTGTCCGAAATGGGATTTTCTGGGGTACCTGGCCTGGCATAAGTGAGGCACAACCTGGTGGTTACAAGTCCTCCTTCAAAGAAGTCAAAATGATGATCAGACCCAAGCACTTTAAGCCGTAAATCACTAATGCTAACAATTCTGGGTATTCATTACCCAATAGGGCAATTAATTCCTTCAGCACTTTGGAATATGTTTCAAACTCCTTTTCCACGGCTTAAAATTTATCTCTGAGCAATGGGTTCTTATGCCACATAGCATTTGAAATAAAGCTGAAAAATATGCCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009717:ENSBTAT00000012815:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF029949=Transposase_22=PU(98.4=90.3),PF0080420=Syntaxin=WD(100=60.7),PF097264=Macoilin=WD(100=52.9),PF053776=FlaC_arch=WD(100=19.9)
A:
NA
C2:
PF029949=Transposase_22=PD(1.1=0.8),PF0014713=Fibrinogen_C=WD(100=95.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]