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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGGGATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgtttctgtaaagtcataatatacttgatttataatttacaatgtctggatacatggcttatctttatgtctattaactcacattggagtcagga...

Basic information

species Glycine max
transcript GLYMA10G12350.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G12350.2 (Glycine max), 5'ss of exon 2
lower sequence: AT3G12170.1 (Arabidopsis thaliana), 5'ss of exon 3
AGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGGGATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgtttctgtaaagtcataatatacttgatttataatttacaatgtctggatacatggcttatctttatgtct-attaactcacattggagtcagga
 |||||||  || |||||||| |||||||| |||||| | ||||| || |||||||| ||| | || || |||||||| ||||| |  |||||||||||||||||| |    | ||  |   ||  ||  | |    || |  |  || |    | | |  | |||| |   | ||| ||||                   
TGCTAAAGAGAAATTTCAGCAGTTGCAAAAGGTTATTTCGATTCTCGGTGATGAAGAGAAAAGAGCAGTCTATGATCAAACTGGCTCAGTTGATGATGCTgtaagt-tgaaagaaagttttcaacttaagtaaag-gtactggaggattttcttacaaactggttatttccctatctcattag------------------

upper sequence: GLYMA10G12350.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 5'ss of exon 3
AGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGGGATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgtttctgtaaagtcataatatacttgatttataatttacaatgtctggatacatggct-tatctttatgt-ctattaactcacattggagtcagga------------------------------------
||| || | ||| ||||||||| | ||||| || ||  | |||||||| |||||||| ||| ||||  | |||||||||||||||| ||||||||||||||||||||  | || |||    |  | |  |   ||  |  || |     | ||    ||    | | ||  || |   |  | |     ||||   ||||||                                    
AGCCAAGGAAAAATTTCAGCAACTACAAAAGGTGATATCAATTCTTGGTGATGAAGAGAAAAGGGCACTCTATGATCAGACTGGTTGTGTTGATGATGCTgtaagtgaatatgaaaaccttttgttttgtatgttcttttttaatggcatttgagggcacaaatgtgtccataagaattgatgatatctattg--atcaggaagtgtgcatcttatttctcaatttttttatgatcag
















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|207792619|gb|GD767381.1|GD767381
EST:     AGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: AGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|151412912|gb|EV282724.1|EV282724
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|151396151|gb|EV266028.1|EV266028
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|41145363|gb|CK605574.1|CK605574
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|193395879|gb|FK364448.1|FK364448
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCTGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|298194691|gb|HO043163.1|HO043163
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|192323158|gb|FK017384.1|FK017384
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|151402844|gb|EV272657.1|EV272657
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|193556711|gb|FK511920.1|FK511920
EST:     GAAGAAAAACGGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGACT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAAT
genomic: GAAGAAAAAC-GGGCCGTTTATGATCAGACTGGTTTTGTTGATGATG-CTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAAT
EST: gi|151407863|gb|EV277678.1|EV277678
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|193479469|gb|FK444254.1|FK444254
EST:     ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: ATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|16346108|gb|BI971703.1|BI971703
EST:     GACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
genomic: GACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTTCAGAATCTTAAAGAATATTTCAGAGCAATG
EST: gi|208101594|gb|GD899555.1|GD899555
EST:     TGAAGAAAAACGGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCT                         GAACTTGCAGGGGATGTTGTT
genomic: TGAAGAAAAAC-GGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgttt ... ctaaaatcagGAACTTGCAGGGGATGTTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTAAAGCAAAGTTTCAGCAATTGCAAAACGTTATTGCTATTCTTGGGGATGAAGAAAAACGGGCCGTTTATGATCAGACTGGTTTTGTTGATGATGCTgtaagtgtttctgtaaagtcataatatacttgatttataatttacaatgtctggatacatggcttatctttatgtctattaactcacattggagtcagga

- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA