Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatgctctacaatgacaaatcaaattatttccacaaccatcttctgaattctgactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G02850.2 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------gtaaaatgctctacaatgacaaatcaaattatttccacaaccatct-tctgaattc--tgactcagagacggttaaatttatgt------tagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
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gtaagaaatagagagtactaccaaggcacaagtatccaaactgaactgatcaatacataattacacataattagaatgttgctttgaaaaagtttagattctatattcaattgtttatgtaaaattgatgatttcttattggtttaatttctaaactgtacagGTGAACTATGTGAATGCTCATGCCACGTCAACACTGGCTGGTGACTTGGCTGAGGTTAATGCAATTAAAAAGGTTTTTAAGGACACATCAGAATTGAAAA
upper sequence: Vv02s0025g01730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G10220.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------------gtaaaatgctctacaatgacaaatcaaattatttccacaaccatct-tctgaattc--tgactcagagacggttaaatttatgt------tagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
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gtaagaaatagagagtactaccaactaccaaggcacaagtatccaaactgaaatgatcgatacataattacacataattagaatgttgctttgaaaaagtttagattctatattcaattgtttatgtaaaattgatgatttcttattggtttaatttctaaattgtacagGTGAACTATGTGAATGCTCATGCCACGTCAACACTGGCTGGTGACTTGGCTGAGGTTAATGCAATTAAAAAGGTTTTTAAGGACACATCAGAATTGAAAA
upper sequence: Vv02s0025g01730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G36690.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------------------------------------gtaaaatgctctacaatgacaaatcaaattatttccacaaccatcttctgaattct----gactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
|||| | | | | | | |||| ||| || | | |||||||| | || | | | || | | |||| |||||||||||||||||||| |||||||| ||||| || || ||||| ||||| ||||| || || ||||| || |||||||| || || | || |
gtaagaaatagagagtattaccaagtaaccagtatcagaactgaactgatatatatatatatatatatatatatatatatatatatatatatatatactcctttaaaaacaattcagattcttacgttcaattgtttatgtaa--aattgatgaattctaattggcttggctaacctctaaactgtac-agGTAAACTATGTGAATGCTCATGCCACATCAACACTGGCTGGTGACTTGGCTGAGGTTAATGCAATTAAAAAGGTTTTTAAGGACACGTCAGAATTGAAAA
upper sequence: Vv02s0025g01730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ32129 (Selaginella moellendorffii), 3'ss of exon 3
gtaaaatgctctacaatgacaaatcaaattatttccacaaccatcttctgaattctgactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
|||||| | | | | || || | | ||| | | || | || || ||| | |||| || || | || |||||||| || ||||| ||| || || ||||| ||| |||||||||||||||||||||||| || | || |||||||
gtaaaagacatttctt-------ttttgtttcttataaagacatttcgccatttttttgtcgcctgcgac----tttgt-ccagGTAAATTACATCAACGCTCATGCTACTTCAACGGTGGTCGGCGACTTGGCCGAGATCAATGCCATCAAGAAGGTCTTCAGCGAATCCAGCGACATAAAGA
upper sequence: Vv02s0025g01730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ37714 (Selaginella moellendorffii), 3'ss of exon 3
gtaaaatgctctacaatgacaaatcaaattatttccacaaccatcttctgaattctgactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
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----------gta-aaagacatttcttttttgtttcttataagacatttcgccatttttttgtcgcctgc-gactttgt-ccagGTAAATTACATCAATGCTCATGCTACTTCAACGGTGGTCGGCGACTTGGCCGAGATCAATGCCATCAAGAAGGTCTTCAGCGAATCCAGCGACATAAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttccacaaccatcttctgaattctgactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
ttctgac putative branch site (score: 2)
ttaaatttatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatgctctacaatgacaaatcaaattatttccacaaccatcttctgaattctgactcagagacggttaaatttatgttagGTGAACTATGTGAATGCTCATGCAACATCAACTCTGGCAGGGGATTTGGCAGAGGTCAATGCCATCAAGAAGGTCTTCAAGGACACATCTGAGATAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG