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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttttacacacaccctttttttctaacccaactttttccatatgcttgctgtaaaaatccaatctttctttctttttatccttttattgcttttgggttagctgattaactctttgggtgcaaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATACAAAGACAGAG

Basic information

species Glycine max
transcript GLYMA03G30800.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G30800.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0104g00320.t01 (Vitis vinifera), 3'ss of exon 2
gtatttttacacacaccctttttttctaacccaactttttccatatgcttgctgtaaaaatc-caatctttctttctttttatccttttattgcttttgggttagctgattaactctttgggtgcaaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATACAAAGACAGAG
|| ||||  |       |  | | | | |       |||    |  |  ||   | |||||    ||| ||||   ||| ||   | |  || ||||||||           | | |||| | |    |  ||||||  ||||  || | ||||||||||| || |||||||| |||| ||||||||| |||||||
gttttttcccctgttttccctctgtttgatttgttctttattctgggtctggactgaaaattgttatcgttctaaatttctaatttctggtt-cttttggg-----------attgtttgtggggttgtgacagTGGGCTTACCGATTCGAATTACACCCAATTGACTGAGCTCTACAACAAATACAAGGACAGAG
















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|298192383|gb|HO036465.1|HO036465
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         CGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|213611742|gb|DB958864.1|DB958864
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|298165676|gb|HO008647.1|HO008647
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|298175980|gb|HO015385.1|HO015385
EST:     AGCATCTGCAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCCTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|16345172|gb|BI970767.1|BI970767
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|298194623|gb|HO043095.1|HO043095
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCGTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|193553968|gb|FK512509.1|FK512509
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|8282815|gb|BE020376.1|BE020376
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|298178511|gb|HO024246.1|HO024246
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|298181386|gb|HO022825.1|HO022825
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|23734566|gb|BU765519.1|BU765519
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|18039234|gb|BM307528.1|BM307528
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|57574515|gb|CX547490.1|CX547490
EST:     AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
EST: gi|17400959|gb|BM177741.1|BM177741
EST:     AGCATCTACATTGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATG                         TGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA
genomic: AGCATCTACAAAGGGAAGGTTCTTCTTGTAGTAAATGTCGCTTCAAAATGgtatttttac ... caaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatccttttattgcttttgggttagctgattaactctttgggtgcaaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATACAAAGACAGAG
                            gattaac  putative branch site (score: 2)
      ttttatt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttttacacacaccctttttttctaacccaactttttccatatgcttgctgtaaaaatccaatctttctttctttttatccttttattgcttttgggttagctgattaactctttgggtgcaaattgcagTGGATTTACGAATACCAATTACACCCAGTTAACTGAGCTTTACAGCAAATACAAAGACAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT