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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaattgtatcttgagttagtcagagattagatctataaatttgtttcaaattggtctcaatttccatcaatattgtaatactgtttttatata...

Basic information

species Glycine max
transcript GLYMA05G30430.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30430.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os01g21940.1 (Oryza sativa), 5'ss of exon 14
GAATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaattgtatcttgagttagtcagagat---tagatctataa---atttgtttcaaattggtctcaatttccatcaatattg---taatactgtttttatata--------
||| ||||| ||||||||||| || || || ||| ||||||||||||||||||| ||| | |    |  |  ||||     |  ||    | || |||||   |||||| | |  ||    | |   |   | |||  |       | |||| || ||  |        
GAACATGTATTGCTTTAGCTACCAGTCCGGTAAACTGGAGCATCTAATGAAGgtttgtatgacataaaatgaagttctgttggcatgtgcaaatttataatgtatttgtataacgttatattaatgctttctaaatgataacccctttctgtattcatgaatttcacag

upper sequence: GLYMA05G30430.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G037683_T01 (Zea mays), 5'ss of exon 14
GAATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaattgtatcttgagttagtcagagatta-gatctataaatttgtttcaaattggtctcaatttccatcaatattgt--aatac-tgtttttatata---------------
||| ||||| ||||||||||| |||||||| ||| |||||||||| |||||||| ||   ||  |   || || || || |    ||  | ||        |||     ||           |  | ||||||     ||||| ||   | |||||               
GAACATGTATTGCTTTAGCTACCAATCTGGTAAACTGGAGCATCTGATGAAGgtttgcccaa--gatcctggaatttgttaatccttgtgttcctcgtcactgtgatttatcaactatccagttaaccaatataactaaatacatgacatgatataccctggattttgcag

upper sequence: GLYMA05G30430.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv17s0000g08930.t01 (Vitis vinifera), 5'ss of exon 15
GAATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaattgtatcttgagtt--agtcagagattagatctataaatttgtttcaaattggtctcaatttccatcaatattgtaatactgtttttatata
|||||| |||||||| ||||| ||||| || ||||| |||||||||||||||||| |       |||     || |  || |||   |||   ||| | |     || | ||||   | | ||    |  || |   |  ||     | |   |
GAATATCTACTGCTTCAGCTACCAATCGGGTAAATTAGAGCATCTAATGAAGgtaagctattaggtagtggaagcttaagccagtatttattacta-ataccaccttgagattgccattagttgg-gtgtatctgacatcacaagaatcagcaa

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|193366687|gb|FK332423.1|FK332423
EST:     ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAG                         GTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCC
genomic: ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaa ... ctaatggcagGTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCC
EST: gi|207778029|gb|GD747094.1|GD747094
EST:     ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAG                         GTCCACGAGAAGGAAGTTATA
genomic: ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaa ... ctaatggcagGTCCACGAGAAGGAAGTTATA
EST: gi|213619985|gb|DB976961.1|DB976961
EST:     ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAG                         GTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT
genomic: ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaa ... ctaatggcagGTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT
EST: gi|209727602|gb|BW669926.1|BW669926
EST:     ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAG                         GTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT
genomic: ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaa ... ctaatggcagGTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT
EST: gi|208302631|gb|GE097876.1|GE097876
EST:     ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAG                         GTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT
genomic: ATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaa ... ctaatggcagGTCCACGAGAAGGAAGTTATAGGTGTCACTCATCATCCCCATAGGAATCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATATGTACTGCTTTAGCTATCAATCTGGCAAATTGGAGCATCTAATGAAGgtatgtgtaattgtatcttgagttagtcagagattagatctataaatttgtttcaaattggtctcaatttccatcaatattgtaatactgtttttatata

- - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - GGAGCA