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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatacattagcactacttagacattatttttattaggtctgaatgtattggttaagttatatgtgcatttccttccatatatttttttgcaattc...

Basic information

species Glycine max
transcript GLYMA03G39530.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G39530.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 7
GTCGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatacattagcactacttagacattatttttattaggtctgaatgtattggttaagttatatgtgcatttccttccatatatttttttgcaattc-----
|| || |||||||| ||||| || ||||||||||||||||||||||||||||||||||| ||| ||||  | ||||||||||  ||  ||      ||   | |   ||||  ||||   |   |  | |      ||||  | |   ||  |  ||| | | ||     | | |        
GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattatttatatatg-tataaatattctattcctatt---ttaaagggaagaaaccaagtggtgt-cacacctttttcaaaacatcaaactactacatatgga
















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|19453054|gb|BM954464.1|BM954464
EST:     CAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: CAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|192303326|gb|FG995620.1|FG995620
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|37997277|gb|CF808866.1|CF808866
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|151403727|gb|EV273537.1|EV273537
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAC                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|31311467|gb|CD396670.1|CD396670
EST:     AATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: AATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|37996140|gb|CF807729.1|CF807729
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|298184842|gb|HO030055.1|HO030055
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|9987385|gb|BE661493.1|BE661493
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|58022852|gb|CX709593.1|CX709593
EST:     ATGTGCAGTTAGATGCAAACCATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|58019780|gb|CX706522.1|CX706522
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|10231910|gb|BE800798.1|BE800798
EST:     ATGTGCAGTTAGATGCGAAACATGAATGCGAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|18711075|gb|BM522558.1|BM522558
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatac ... tttatttcagGCCCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatacattagcactacttagacattatttttattaggtctgaatgtattggttaagttatatgtgcatttccttccatatatttttttgcaattc

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccttcc