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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACATGAAAGAAGGAGAGAATCCATCATTTTCTGAGCTTTCTGAGAGAGCATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaacagcagtccaaatttatttttcagtacttcatttgaacatgctactgacaaaccttttctatttgcag

Basic information

species Glycine max
transcript GLYMA10G32300.1
intron # 23
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32300.1 (Glycine max), 5'ss of exon 23
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 5'ss of exon 23
ATACATGAAAGAAGGAGAGAATCCATCATTTTCTGAGCTTTCTGAGAGAGCATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaacagcagtccaaatttatttttcagtacttcatttgaacatgctactgacaaaccttttctatttgcag
 |||||||||  ||| ||||| |||||||||||||||||| |||| || ||| |||| |||  |||||| || || || |||||||| ||||| ||||| |||  |       | | || | ||   ||  | |    |  || | | |  |     |||||||| | |  || |||
CTACATGAAACCAGGCGAGAACCCATCATTTTCTGAGCTTGCTGAAAGGGCACATTTGCGGCAAGAAGTTGCCATTGGCTATGTGAAAAACAATAAGAAGgtaaactgctttgatttcacacttgaattgaaatggcactgttaagcttatt-----caaaccttat-tggttacag
















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|21889881|gb|BQ743094.1|BQ743094
EST:     CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAAT                         GTAATCAACCCTGTTGCCAAGTCTGA
genomic: CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaac ... ctatttgcagGTAATCAACCCTGTTGCCAAGTCTGA
EST: gi|10255540|gb|BE823306.1|BE823306
EST:     CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAAT                         GTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
genomic: CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaac ... ctatttgcagGTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
EST: gi|7042555|gb|AW472449.1|AW472449
EST:     CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAAT                         GTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
genomic: CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaac ... ctatttgcagGTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
EST: gi|58023689|gb|CX710430.1|CX710430
EST:     CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAAT                         GTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
genomic: CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaac ... ctatttgcagGTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
EST: gi|120493952|gb|EH222119.1|EH222119
EST:     CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAAT                         GTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC
genomic: CATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaac ... ctatttgcagGTAATCAACCCTGTTGCCAAGTCTGAGCCACTCTCTCTTGAAATGACTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACATGAAAGAAGGAGAGAATCCATCATTTTCTGAGCTTTCTGAGAGAGCATATTTACGGAGAGAAGTAGCTATAGGATATGTGAAGAACAAGAAGAATgtatgcaaacagcagtccaaatttatttttcagtacttcatttgaacatgctactgacaaaccttttctatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG