Sequence
atgc intronic sequence ATGC exonic sequence...aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g13570.1 (Oryza sativa), 3'ss of exon 6
-aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttct-tgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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tatatgtacttctgctcaattaacgcttgttattataaaaatatgccctttttggact--actgaaatgattgaacctgtaacattctatttcccttatcagGACGGACAATGCAATTAAAAATCACTGGAACAGTTCAGTAAAGAAGAAAGTCGACTCATACATGTCATCAGGTTTACTTACCCAAGTCTCGTGTCTCCCT
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g12860.1 (Oryza sativa), 3'ss of exon 6
--aagtgaatataattgccattttcccatcagaact--cggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttct-tgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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gtacttttgtgcaattaat-tcttcttgttaatttttttaaaaaaacctcttttagactattga----agtcattgaatttttaaaattctgtttcccctatcagGACGGACAATTCAATTAAAAATCACTGGAACAGTTCAGTAAAGAAGAAAGTCAATTCATACATGTCATCAGGTTTACTTACCCAAGTTTCGTGTCTCCCT
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G470307_T01 (Zea mays), 3'ss of exon 4
---aagtgaatataattgc-cattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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agctacatattactattgcataaatcactctcgttattagtcaatggactactttagattatgaaaataatt----ggatttgtaatttctatttaccctacagGACGGACAATGCAATTAAAAATCACTGGAACAGTTCAGTGAAGAAAAAGGTCGATTCGTACATATCTTCTGGTTTACTTTCACAAGTCCCATGCCTCTCT
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G531738_T01 (Zea mays), 3'ss of exon 3
aagtgaatataattgccattttcccatcaga--actcggaaatatcct-ttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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--ctaattaaaatgtgcatcactaaatcagcctgttagaaaatattgagctatattagaatacagagaaattgatgagtaagtatgtatat-tatcctatcagGACAGACAATGCAATTAAAAATCATTGGCACAGCTCGGTGAAGAAGAAAGTTGATTCATACAGATCATCTGGTTTACTGGCTCAATCCCAGGGCTTCACA
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 3
aagtg-aatataattgcc----attttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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aattatagcatcagtgcgcctggttttctcatgtgcaattttagtt--cattcttaatcgtctctgta-aagttgtgacgtactagtgcttttgttga--aacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G26240.1 (Glycine max), 3'ss of exon 7
---aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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aattatagcatcggtgtgcctgtttttttcaagtacaattttagttcattcttaatcgtctgtgta-aagttgtgacatacttgtgcttttgttga--aacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGCCTGCTTACTCAGTTTGAATCTGTTCCT
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G08660.1 (Glycine max), 3'ss of exon 7
aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
| | | | | | |||| | ||| ||| | | | |||| | |||| ||| | | || ||||||||||||| | |||||||| || ||||| || || |||||||| || ||||| ||||| ||||||||||| | ||| | ||||| |||| | | |
----------------------gtaaatacatattgagttccttcttttttggaaggtaaatacacatattgaattacttgtg--cttatgtggcaacagGACAGACAATTCTATAAAAAACCATTGGAATAGTTCTGTAAAAAAAAAATTGGATTCTTACTTGGCATCAGGCCTGCTTACTCAGTTACAAAATGTACCA
upper sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaag---cataatttctgaaatg----------tctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
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gtaaatatgtcttttccatgggtcctagtataacaacataggtgtaacatgtccgtaaaattggtggcctcataaatgaaataataggtttttgatgctggtagttgtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
ttcttgttttccatc CT-rich tract
aaattaagcataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
- - - - - - ttgccat
- - - - - - - - - - - cccatca
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctgt