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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAATGCAGTGTTAGCACGCCGTCTATTGAGTGGAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatctgataggctttaatcttttacaaaaaaatcaattgaactattgagttgttcgcttgtgatgaaatgatgaacttgtttcctagattttct...

Basic information

species Glycine max
transcript GLYMA11G02560.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G02560.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0025g03510.t01 (Vitis vinifera), 5'ss of exon 5
AAAAATGCAGTGTTAGCACGCCGTCTATTGAGTGGAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatctgataggctttaatcttttacaaaaaaatcaattgaactattgagttgttcgcttgtgatgaaatgatgaacttgtttcctagattttct--
|| ||| || | |||||  | |||||| | | |||||| ||||| |||||||||||| |||| ||| |||| ||||| ||||||||||| | |||   | |  |     ||  ||||  |   |  ||   |  || | ||     ||  |  ||     |  |  || | |    |  | |||  
AACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAGgtatggtgtctataatgggtcctatttgcacaattattacttttctgcagttcaattacaaactgctactgggggaa--atgttatctatctgtgtgtctgc
















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|58024016|gb|CX710757.1|CX710757
EST:     GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAG                         GAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
genomic: GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatc ... tgaagttcagGAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
EST: gi|208086371|gb|GD879433.1|GD879433
EST:     GCCTTCAAAAAATATTAAATATGACACCCAATGAATTAAAG                         GAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
genomic: GCCTTC-AAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatc ... tgaagttcagGAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
EST: gi|209710881|gb|BW653642.1|BW653642
EST:     GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAG                         GAGGGTTTGG-TGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
genomic: GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatc ... tgaagttcagGAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC
EST: gi|14008792|gb|BG725396.1|BG725396
EST:     GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAG                         GAGGGTTTGGTTGCTGAGGAAAAAACCAAAGAGCCTGACGAGACCCAGCAC
genomic: GAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatc ... tgaagttcagGAGGGTTTGGTTGCTGAGGAAAAAACCAAGGAGCCTGACGAGACCCAGCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAAATGCAGTGTTAGCACGCCGTCTATTGAGTGGAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAGgtatgatatctgataggctttaatcttttacaaaaaaatcaattgaactattgagttgttcgcttgtgatgaaatgatgaacttgtttcctagattttct

- - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaat