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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataacaattttatagcacacatttggaagtgactgctcttaatcaggcgtttattgatgatttattgtcataacag

Basic information

species Glycine max
transcript GLYMA09G01370.4
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G01370.4 (Glycine max), 5'ss of exon 10
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 5'ss of exon 9
GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtacta----taacaatt---ttatagcacacatttggaagtgactgctcttaatcaggcgtttattgatgatttattgtcataacag-----------
|||||||||||||| || ||||||||||| |||||||||||||||||| |     |||  |||   ||| |||||||| |      ||  |  | | ||  | ||  ||  | ||  ||||||    |  | |           
GAGTCAAGCAAGAGTATTCAGATTGAAGCTTTTCATGTTTTCAAGgtattggatctaaatattcacttacagcacacaatgtaccttgcttattttcaaggatgcccttggtaat--tttatttgtgtctctgaatttctacag
















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|254315382|gb|GR825191.1|GR825191
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|254315383|gb|GR825192.1|GR825192
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|120532773|gb|EH260906.1|EH260906
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|254314657|gb|GR829650.1|GR829650
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|15662122|gb|BI699493.1|BI699493
EST:     TAAGAGAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: TAAGAGAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|120533916|gb|EH262049.1|EH262049
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|254314384|gb|GR831969.1|GR831969
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|21887763|gb|BQ740976.1|BQ740976
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|42722916|gb|CK768815.1|CK768815
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
EST: gi|9899741|gb|BE608709.1|BE608709
EST:     AGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT
genomic: AGATTGAAGCATTTCATGTTTTCAAGgtactataac ... gtcataacagCTATTTGCTGCTAACCAACATAAGCCAGCTGATATCGTCGGTATATTTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataacaattttatagcacacatttggaagtgactgctcttaatcaggcgtttattgatgatttattgtcataacag

- -  AAGCAA
- - - AGCAAG
- - -  GCAAGA
- - - - - AGAGCA
- - - - - - - - - - - TTGAAG
- - - - - - - - - - -  TGAAGC