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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATATTTTGTGCAGTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtacatccttcactaatacgcttcactttaataccaaaaaagaaaatcgacaataaattcacttatttgaggaataactgtatttattcctgttgcag

Basic information

species Glycine max
transcript GLYMA15G13190.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G13190.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv10s0003g02760.t01 (Vitis vinifera), 5'ss of exon 6
TCATATTTTGTGCAGTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtacatccttcactaatacgcttcactttaataccaaaaaagaaaatcgacaataaat--tcactta-tttgaggaataactgtatttattcctgttgcag----------------------------------------------------------------------
|| | |||||||||||| |||||||||| || || || ||||| ||| ||||| | |||||||||||||||||||| || |||||| ||| || | || | | || || ||| | | |||| | ||||| || |||| | || | || | |||| | | ||
---------------AATTGTTCTTGAAACTGATGCAAATGTTATTGCGGGAAAGGTTGCAAGTCATAGTCTTGATTCTGGAGCTCCTTTGTCTGAGCAGgtactgtaattctcttgcttttcccctgca-tttgagagaaaaatataaaatatttaaaaaatagtaacacaacctggagggcctctgttaccacttaccacccaatgaaaatgtaaatcctgttggctcatctcaatatatgctctaaataataaacttaattttccttttgcag
















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|208246710|gb|GE046240.1|GE046240
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|192298900|gb|FG987645.1|FG987645
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|207780333|gb|GD752142.1|GD752142
EST:     AAAGTTGCTTAGTAATAGTATAGATTTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: AAAGTTGC-TAGTAATAGTATAGA-TTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193728955|gb|FK665623.1|FK665623
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACA
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACA
EST: gi|193661760|gb|FK606550.1|FK606550
EST:     GGAAAGTTGCTAGTAATAGTACAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193675352|gb|FK619114.1|FK619114
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193700488|gb|FK635509.1|FK635509
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193558188|gb|FK514881.1|FK514881
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCATATTTTGTGCAGTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtacatccttcactaatacgcttcactttaataccaaaaaagaaaatcgacaataaattcacttatttgaggaataactgtatttattcctgttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT