Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 16
----------------------------------gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcc--taatgccagaaccattt-----------------tagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
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gtatgcgcattgataagtactagactgcctgaacatatatg-atccctttgcagataaatgttcataaactttgacaagctataacattaataactgaggtggttgtaatccgttgaatatgcagGTCACCATTGTAGTGGTTGCAGTGCCTGAAGGGCTGCCTTTAGCAGTTACCTTAAC
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 13
-------------------------------------------------gtatgtgcatttctattaagataca---ggttttgtattt----ttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
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gtatgtgcattgataagtactagaatacctggacatatatgatccatttgcagataaatattcataaactttcatgagctttaacattaataactatgaggtgat-tgtaatgcgttgatcatgt-agGTCACCATTGTGGTGATTGCAGTGCCTGAAGGGCTGCCTTTAGCAGTTACCTTAAC
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 13
-----------------------------------------------------gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
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gtatgtgctatgataaatacttgattaccagagcatgctaggtgcaattaaagatgtgtgtatccatatttatatttcagactttaatatctatgtagtgataa-taacccaatgaatatat-agGTCACCATTGTAGTTGTTGCAGTACCAGAGGGGCTCCCATTAGCAGTTACTTTAAC
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 13
-------------------------------------------gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
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gtatgtgctatgataattaccagagcatgcttggtgcaattaaagatgtatatccatatttatatttcagactttaatatctatgtagtgataa-taacccaatgaatatct-agGTCACCATCGTAGTGGTTGCAGTACCAGAGGGGCTCCCATTAGCTGTTACTTTAAC
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 15
-------------------gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaat--gccagaaccattt--tagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
|| |||| ||| || | | || | | || | | || | || || | || | | ||||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||
gtaagtgtttctttagaagaaattagcatggctaatacggtt---gtcatcttcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
upper sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 15
----------------------------gtatgtgcatttct-attaagatacaggt-tttgtatttttctgaatttatgcctaatgccaga--accattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
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gtatgtttcctagtgaacaatcttagtctgatagggattcgggacccagcagtaagtatctttaatcttctttagtaatgc-taatactcggctattgctgcagGTTACAATTGTCGTAGTGGCAGTGCCTGAGGGTCTTCCTTTGGCTGTTACTTTAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagatacaggttttgtatttttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
gcctaat putative branch site (score: 3)
ccatttt putative PPT
ttttgtatttttctga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaatgccagaaccattttagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT