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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACTACTGGAGGCTTCCCAAGGATGCAACTCTCAAGGATGTTGTCACTGTGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttccttttcgtctcataatggacaacaacaaaaattgttaggaacacattcttcaacatattttttttaaagaaatttaacatattttcttatt...

Basic information

species Glycine max
transcript GLYMA08G07690.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G07690.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G64210.1 (Arabidopsis thaliana), 5'ss of exon 4
TGACTACTGGAGGCTTCCCAAGGATGCAACTCTCAAGGATGTTGTCACTGTGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcctttt-cgtctcataatggacaacaacaaaaattgttaggaacacattcttcaacatattttttttaaagaaatttaacatattttcttatt
||| || |||||  | || || ||||| ||  | || |||||||| || |||||||| |||||||| ||||||||  | ||||| ||||| ||||||||||| ||| |       |  | | |            ||||| |    ||   || |   |||  |   |   |||    || ||| || |||     | || 
TGATTATTGGAGATTGCCTAAAGATGCTACGTTGAAAGATGTTGTAACGGTGATTCGTGCTGATGAAGCTCATCATCGAGATGTCAACCATTTTGCTTCTgtgagtctaaaacaacaacccttttattttttttccaaaactcccgagtttcatacatttcttcgggtccatttcggtgatatt-aaaataacaaatgata

upper sequence: GLYMA08G07690.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0142g00430.t01 (Vitis vinifera), 5'ss of exon 4
TGACTACTGGAGGCTTCCCAAGGATGCAACTCTCAAGGATGTTGTCACTGTGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttccttttcgtctcataatggacaacaacaaaaattgttaggaacacattcttcaacatattttttttaaagaaatttaacatattttcttatt------------
 ||||||||||||||||||||||| ||||| || ||||||||| | |||||||| || |||||||| ||||| ||  | ||||| || || ||||||||||| |||     |  | |     | |      |||   |  || || |       || |||  |  |||||  || ||    ||    |  || |  | ||            
AGACTACTGGAGGCTTCCCAAGGACGCAACCCTGAAGGATGTTATAACTGTGATCCGTGCTGATGAAGCTCACCATCGAGATGTCAATCATTTTGCTTCTgtgagtactgctagccttctccatt-----tcaatgcatgtttttgg-------tttttcttctgattttggttgaatttcttatgtactttgttctgtttgaatgagccaa
















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|209703960|gb|BW667950.1|BW667950
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|151402394|gb|EV272207.1|EV272207
EST:     TGATTCGCGCTGATGAG-CTCATCACAGG-ATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAG-AAT-AAAAGAG-CTCCAGCTC
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTC
EST: gi|209725251|gb|BW672726.1|BW672726
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|14206100|gb|BG839778.1|BG839778
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|31456430|gb|CD398458.1|CD398458
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|151402928|gb|EV272741.1|EV272741
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATC
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATC
EST: gi|120493877|gb|EH222044.1|EH222044
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|14205965|gb|BG839643.1|BG839643
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|6725784|gb|AW310183.1|AW310183
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|197664698|gb|FD480371.1|FD480371
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|10231827|gb|BE800715.1|BE800715
EST:     TGATTCTCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAACAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|254315660|gb|GR825469.1|GR825469
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|192321276|gb|FK012037.1|FK012037
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTTT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|31470560|gb|CD412588.1|CD412588
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
EST: gi|14205678|gb|BG839356.1|BG839356
EST:     TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCT                         GATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT
genomic: TGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttcc ... cttcgtgcagGATATTCATCATCAAGGGAAGGAATTAAAAGAGGCTCCAGCTCCTATTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGACTACTGGAGGCTTCCCAAGGATGCAACTCTCAAGGATGTTGTCACTGTGATTCGCGCTGATGAGGCTCATCACAGGGATGTTAACCACTTTGCTTCTgtaagtttccttttcgtctcataatggacaacaacaaaaattgttaggaacacattcttcaacatattttttttaaagaaatttaacatattttcttatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaagaaa