Sequence
atgc intronic sequence ATGC exonic sequence...gatttaactttctgaataactcttgatttactcatggctattctttccccattccattgtaattgaactttgacatatatcaatcctttcaaaattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 6
-----gatttaactttctgaataactcttgatttact-catggctattctttccccattccattgtaattgaactttgacatatatcaatcctttcaaaattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
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caaagaaaatagcattaacaa-aacacagattcttctgcaggcacatttaaatgtctggttatttaaatt--attctagc-taacttgattattgcata--tgcagGTCTCGCTTTTAAATATCGTTGTTGAGTTGAAAAAGTGCTGCAACCACCCATTTTTATTTGAAAGTGCTGATCATGGTTATGGTGGAGATAGCATTGGTG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G141258_T01 (Zea mays), 3'ss of exon 19
---------------------------------------------------------------------------gatttaactttctgaataactcttgattt----actcatggctattctttccccattccattgtaattgaactttgac-----atatatcaatcctttcaa--aattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
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gtgagccaaatctgctctcccatgtgggcaaggattgattgtttataacttcatgtctgatctactaaattcaaataattagtgtgcttggtaacaattgttcttaaggcacatccaaatctgccctccaaaaaattagtgtcctgctatcatgttttatgtgactgacttgttaatgacatgcagGTATCACTTCTTAACATTGTTGTTGAATTGAAGAAATGCTGCAACCATCCATTCTTGTTTGAAAGTGCCGATCATGGTTATGGTGGAGATAGCATCGGTG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 16
--gatttaactttctgaataactcttgatttactcatggctattctttccccattccattgtaattgaactttgacatatatcaatcctttcaaaattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
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gttcctcacctcactgtgcattacctagcaaactggagcatgggcacaaggcaacacttggccattggctaccaaactgacttgatcatggcata--tgcagGTATCACTTTTGAACATTGTTGTTGAATTGAAGAAATGCTGCAACCATCCATTTTTGTTTGAAAGTGCCGATCACGGTTATGGTGGAGATAGCATTGGCG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 18
--------------------------------gatttaactttctgaataact-cttgatttactcatg-gctattctttccccattccattgtaat---------------tgaact--ttgacata----tatcaatcctt---tcaaaattg-cagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
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gtgagtgactttatgatgcacccaggttctcatatttattgttatgaataattattttctttgtccctgcactgtaagttaggtggattattttaatatgcatccgacttcttaagtttgttgatattaagctaacaatctctgagttacaatcaacagGTTTCACTTTTAAACATCGTGGTGGAGTTGAAGAAATGCTGCAATCATCCTTTCTTATTTGAAAGTGCAGACCATGGATATGGGGGTGACATAAACGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccccattccattgtaattgaactttgacatatatcaatcctttcaaaattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
ctttgac putative branch site (score: 4)
tcctttca putative PPT
atatatcaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatttaactttctgaataactcttgatttactcatggctattctttccccattccattgtaattgaactttgacatatatcaatcctttcaaaattgcagGTTTCACTTCTAAATATTGTTGTAGAATTGAAGAAATGCTGCAATCATCCTTTTCTATTTGAAAGCGCAGACCATGGTTATGGTGGGAACAGAAGTACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - -gaataac
- - - - - - - - - - - - - - - -tcatggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatcct