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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGTGCTGCTGCACTAGTTTTGGTGAGTGGAGAGAAGGCACTGAAGCTTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaatatattttaaatacgaactacatcttccgactatagaaaataagaaatagaaaaaccattttggcattcacattatttctagtgtttgatatgttattagtataatttcatactcatatgaggttgagctgtgcag

Basic information

species Glycine max
transcript GLYMA14G00760.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G00760.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM5G866758_T01 (Zea mays), 5'ss of exon 9
TGATGGTGCTGCTGCACTAGTTTTGGTGAGTGGAGAGAAGGCACTGAAGCTTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaatatattttaaatacgaactacatcttccgactatagaaaataagaaatagaaaaaccattttggcattcacattatttctagtgtttgatatgttattagtataatttcatactcatatgaggttgagctgtgcag
|||||| ||||||||| ||||||| ||||||||  ||||||| |   ||||||| ||||||||  ||||||  ||||  || ||||||||||| ||||| |||    | | |       || |     ||  ||| |  |   |||||       | |  ||    || | ||   |  | |||     |||  | |   | ||||||  |                                   
TGATGGAGCTGCTGCATTAGTTTTAGTGAGTGGGCAGAAGGCTCAAGAGCTTGGCCTTCAAGTCCTTGCAAGGATCAAAGGTTATGCTGATGCAGCTCAAgtaagccacaga-------aacaattgttagctctcctaagagtagaatgcgcttattctaatttacactgtgatctaaatatt----ttaggatataggaagttattttt-----------------------------------

upper sequence: GLYMA14G00760.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM5G830250_T01 (Zea mays), 5'ss of exon 8
TGATGGTGCTGCTGCACTAGTTTTGGTGAGTGGAGAGAAGGCACTGAAGCTTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaatatattttaaatacgaactacatcttccgactatagaaaataagaaatagaaaaaccattttggcattcacattatttctagtgtttgatatgttattagta-taatttcatactcatatgaggttgagctgtgcag
|||||| ||||||||| ||| ||||||||||||  ||||||| |   ||||||| || |||||  ||||||  ||||  |||||||||||||| ||||| |||    | |    |   |  |   | || |||                   |  | ||||     | | | |  ||| ||||| |    |   | |  || | |||  | | | ||||                            
TGATGGAGCTGCTGCATTAGCTTTGGTGAGTGGGCAGAAGGCTCAAGAGCTTGGCCTGCAAGTCCTTGCAAGGATCAAAGGATATGCTGATGCAGCTCAAgtaagccaca---gtaacagttgttagctccatt------------------aagagtagagtgcacttctagatatttacattgtgataaaaatattttaggatataggaagttattttt--------------------------

upper sequence: GLYMA14G00760.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 5'ss of exon 10
TGATGGTGCTGCTGCACTAGTTTTGGTGAGTGGAGAGAAGGCACTGAAGCTTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacata---aaatatattttaaatacgaactacatcttccgactatagaaaataagaaatagaaaaaccattttggcattcacattatttctagtgtttgatatgttattagtataatttcatactcatatgaggttgagctgtgcag
|||||||||||||||  |||||||||| |||||||||||||||||  | ||||||||   ||| ||||| || ||  | ||||| ||||||||||||||||||| ||   || ||||   | || |  ||  | |   |     ||       |   || |   | ||  |    ||| || |  | ||   |  |||||  |     | || | |   ||   | ||||||||| ||| ||  |||||
TGATGGTGCTGCTGCTTTAGTTTTGGTAAGTGGAGAGAAGGCACTTCAACTTGGGCTGTCAGTCATTGCTAAGATTGCAGGATACGCTGATGCTGCTCAGgtacttacccaattataaactcaaaaaaaaaaaaaatgtgttggtaggacctctgttaagtgtcagaaaaaa---ggcctttatgtcatggttcatgtttactt--ccagtaatttgtcttggcattcatatgagattg-gcattgcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|10848225|gb|BF070769.1|BF070769
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|192329989|gb|FK021575.1|FK021575
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|17021784|gb|BM092818.1|BM092818
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|15812294|gb|BI784569.1|BI784569
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCATAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|151406879|gb|EV276694.1|EV276694
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|298184901|gb|HO030114.1|HO030114
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|208170990|gb|GD970183.1|GD970183
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACAGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|192328380|gb|FK020091.1|FK020091
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGAT--GCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|15203843|gb|BI426611.1|BI426611
EST:     CAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: CAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|209708680|gb|BW678861.1|BW678861
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACAGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|10256517|gb|BE824283.1|BE824283
EST:     TCAAGTTATTGCAAAAATCACTNNNTATGCTGATGCTGCTCAN                         NANNCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
EST: gi|37994372|gb|CF806118.1|CF806118
EST:     TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAG                         GAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT
genomic: TTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaa ... agctgtgcagGAACCAGAGTTATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGTGCTGCTGCACTAGTTTTGGTGAGTGGAGAGAAGGCACTGAAGCTTGGGCTTCAAGTTATTGCAAAAATCACTGGATATGCTGATGCTGCTCAGgtacataaaatatattttaaatacgaactacatcttccgactatagaaaataagaaatagaaaaaccattttggcattcacattatttctagtgtttgatatgttattagtataatttcatactcatatgaggttgagctgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT