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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtgcctaacggtattccttggtatattgtgattactcatacaataaactaagttgaatgacttctgccttttcag

Basic information

species Glycine max
transcript GLYMA10G34220.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34220.2 (Glycine max), 5'ss of exon 6
lower sequence: AT5G04430.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtgcctaacggtattccttggtatattgtgattactcatacaataaactaagttgaatgacttctgccttttcag
|| ||    |||| | |  |||| || |||||||| ||||||||||||||||||||  |||| ||||| ||||| || || |||||||| | |||||| |            || |  |||| ||  |   |  ||      ||   ||  |||    |   |||| |       |||
GAAGAAGCTAGTACCACGGTGACAATTGGTGTTGCGGATGAGCATATAGGATTGGTGCTTGGACGTGGAGGAAGAAACATCATGGAAATCACTCAGgtatt----------tggcaacccttagttaaaactctttcggtccactgaaacttaaa---acccacttttcttcccgcag

upper sequence: GLYMA10G34220.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0019g05360.t01 (Vitis vinifera), 5'ss of exon 8
GAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtgcctaacggtattccttggtatattgtgattactcatacaataaactaagttgaatgacttctgccttttcag
|| || || || |||||| | || || ||||| |||||||||||||| ||  | || ||||||||||| ||||||||||| ||||| || ||||||||   |       |     |||   ||| ||  |||   |||      | |||| | || | ||     |  || |||||||
GAAGATCGAAGCAACTCAGTTACAATTGGTGTGGCAGATGAGCATATTGGGCTTGTCGTTGGTCGTGGCGGAAGGAATATAATGGACATCAGTCAGgtaaacaaa--tgattcccatttgctggcatcatgt---tacatgagaactaaattgagataaac--tctacgctttttcag
















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|22927860|gb|BU544999.1|BU544999
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|193520218|gb|FK474667.1|FK474667
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|15202846|gb|BI425623.1|BI425623
EST:     GGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: GGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|6502014|gb|AW203387.1|AW203387
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|192308183|gb|FK001281.1|FK001281
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|192303155|gb|FG997731.1|FG997731
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|193665257|gb|FK607969.1|FK607969
EST:     GGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: GGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
EST: gi|208300205|gb|GE098892.1|GE098892
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGG
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGG
EST: gi|24205232|gb|BU964485.1|BU964485
EST:     TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAG                         GCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA
genomic: TAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtg ... gccttttcagGCTAGTGGGGCAAGGATAAAGATATCAGATAGAGGTGATTACGTATCTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGAGCGGAGTAACTCATTGACCATGGGTGTTGCAGATGAGCATATAGGATTGGTTGTTGGTCGTGGTGGAAGGAATATTATGGAAATTAGTCAGgtttgctgtgcctaacggtattccttggtatattgtgattactcatacaataaactaagttgaatgacttctgccttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA