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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTTTTCAGGGACTTTCTATCAATGAATTTAGTGGTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtacagccatcaatctttttatttcaattggaataacaactttgatagaattggaaaaaaagggatatattgtgaccactggacaccaaaagtt...

Basic information

species Glycine max
transcript GLYMA10G41110.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41110.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv01s0011g04670.t01 (Vitis vinifera), 5'ss of exon 10
GGCTTTTCAGGGACTTTCTATCAATGAATTTAGTGGTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtacagccatcaatc---tttttatttcaattggaataacaact-ttgatagaattggaaaaaaagggatatat-tgtgaccactggacaccaaaagtt
||| |||||||| ||||  || |||||||||||||||||| ||||||| || |||||  |||||||||||||||||||||||||||| |  | |   |  |   ||   |||| ||||  | || |||   | |  |   |  |     || | |    |   || | | | |    |  || ||     
GGCATTTCAGGGGCTTTGCATTAATGAATTTAGTGGTCTTGAATTTGATCACCAGCAGCCATTTGATATTCAAACTGGAGAACAGgtaaagggaggacttttgctcctgttttaatttataatgaaatggaagccatccctgcagccacaagatagaatacccatctataaaccacagtaacaaa-----
















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|26056387|gb|CA799301.1|CA799301
EST:     GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAG                         GCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
genomic: GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
EST: gi|14259801|gb|BG882709.1|BG882709
EST:     GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAG                         GCACTAGAGCGTATTTCCTTTGGAAAAAGTAAGATTAGGGATACGGTGATA
genomic: GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
EST: gi|15285802|gb|BI469693.1|BI469693
EST:     GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAG                         GCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
genomic: GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
EST: gi|9899476|gb|BE608444.1|BE608444
EST:     GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAG                         GCACTACAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
genomic: GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
EST: gi|6070484|gb|AW099871.1|AW099871
EST:     GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAG                         GCCCTAGAGCGTTTTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
genomic: GTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA
EST: gi|207802447|gb|GD775679.1|GD775679
EST:     ACTGGAGAACAG                         GCACTAGAGCGTATTTCCTTTGG-AAAAGTAGGATTAGGGATACGGTGATA
genomic: ACTGGAGAACAGgtgacagtac ... ctttttacagGCACTAGAGCGTATTTCCTTTGGAAAAAGTAGGATTAGGGATACGGTGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTTTTCAGGGACTTTCTATCAATGAATTTAGTGGTCTTCAATTTGACCATCAGCATTCATTTGATATTCAAACTGGAGAACAGgtgacagtacagccatcaatctttttatttcaattggaataacaactttgatagaattggaaaaaaagggatatattgtgaccactggacaccaaaagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaaaa