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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttctgtcactagttctcgtaaaagaattagttgtttatcataacctggattaaatatcgaggaaatcaaattaggcaacctcggaccctgatt...

Basic information

species Glycine max
transcript GLYMA11G34840.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G34840.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 5'ss of exon 3
ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggt-ttctgtcactagttctcgtaaa---------agaattagttgtttatcataacctggattaaatatcgaggaaatcaaattaggcaacctcggaccctgatt
|||||||||||| || || || |||||||| |||||||| || || |||||||| || |||||||| || |  | | ||| |||   || | ||         |  || | ||||| |  || |  ||| |||    |   |  ||| | ||||   || |             
ACTGGAGGATGCAGGCTACGCTGTTGGGGCCCGAGTTCTAGAACTCCTTTGCCATAGGGATAAGgtgtgatgctttctcattagacatctttaacatgtgcatattatcatttgttgacaatgaa-tggtttattatttatgtgaattatattaattaatccaaa---------
















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|254320117|gb|GR831033.1|GR831033
EST:     TGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: TGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|151411948|gb|EV281759.1|EV281759
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|207751764|gb|GD723645.1|GD723645
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208278600|gb|GE077931.1|GE077931
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208041585|gb|GD840389.1|GD840389
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGG
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGG
EST: gi|151396616|gb|EV266493.1|EV266493
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|151410774|gb|EV280589.1|EV280589
EST:     GATATGCGGTTGGGGCTCGAGTTCTCGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|192320522|gb|FK011932.1|FK011932
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208134278|gb|GD931371.1|GD931371
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|207701893|gb|GD683445.1|GD683445
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|298191865|gb|HO035947.1|HO035947
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208256579|gb|GE057408.1|GE057408
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|13477866|gb|BG507568.1|BG507568
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|207702593|gb|GD685673.1|GD685673
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|151405191|gb|EV275005.1|EV275005
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCGCAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208221539|gb|GE018619.1|GE018619
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|8286428|gb|BE023996.1|BE023996
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|192320523|gb|FK011933.1|FK011933
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|151412057|gb|EV281869.1|EV281869
EST:     GATATGCGGTTGGGGCTCGAGTTCTCGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|42723157|gb|CK769056.1|CK769056
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|193492237|gb|FK455263.1|FK455263
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|9987096|gb|BE661204.1|BE661204
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|208134214|gb|GD927919.1|GD927919
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
EST: gi|193330318|gb|FK294896.1|FK294896
EST:     GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAG                         GGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT
genomic: GATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttc ... ggaattacagGGAAACAGAAGGGAGACACGGCTGTTGGGTATTCTTTCTTTTGTACACAGT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGCCACAGAGATAAGgtatggtttctgtcactagttctcgtaaaagaattagttgtttatcataacctggattaaatatcgaggaaatcaaattaggcaacctcggaccctgatt

- - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaaaaga