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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGTTGGTGTGGCACCAACATCATCAGGCTTGAGAGAATCCAGTGGTGTTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcacacactgttaattctcaatacaatatcgtttttttttgtgggataattttttgttgtttgattttttaagtttgagacattgttgcttacggcttgccttatcgtgtag

Basic information

species Glycine max
transcript GLYMA19G41420.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41420.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 2
TTCAGTTGGTGTGGCACCAACATCATCAGGCTTGAGAGAATCCAGTGG------------TGTTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcacacactg--ttaattctcaatacaatatcgtttttttttgtgggataattttttgttgtttgatttttta--agtttgagacattg-ttgcttacggcttgcctt-atcgtgtag
           | ||||| || ||    || ||||||||| | |||||            |||||||||||||||||| ||||||||||| |||| |||||||||||| ||||||||| |   ||||   |||| ||   |      |||| ||  | |      |  |||        || |||  |||    |      ||||| || || | | |    ||| ||  |  ||
---------CATAGCACCTACCTC---TGGTTTGAGAGAACCTAGTGGCCACAATGCCGGTGTTGATAGGTTGCCAGAAGAGATGAATGACATGAAAATTAGGGATGACAAAgtatgtgagggactggtctaatgcttc-tgtttcttcgtgttactgttccttgtcttttgcctgcacttaattgattattgatcatttgcattggttactgaagacagttcttgatttttcag
















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|213616919|gb|DB959231.1|DB959231
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|208110039|gb|GD904509.1|GD904509
EST:     TTGATAGGCTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTT
EST: gi|254328746|gb|GR833118.1|GR833118
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|27809424|gb|CB063846.1|CB063846
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|209725616|gb|BW663105.1|BW663105
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|6913877|gb|AW395407.1|AW395407
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|213591319|gb|DB973808.1|DB973808
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|298165875|gb|HO008846.1|HO008846
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
EST: gi|208285521|gb|GE082457.1|GE082457
EST:     TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAA                         GAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT
genomic: TTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcaca ... tatcgtgtagGAAATGGAAGCCACCGTTGTCGATGGTAACGGAACAGAGACCGGACATATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAGTTGGTGTGGCACCAACATCATCAGGCTTGAGAGAATCCAGTGGTGTTGATAGGTTGCCAGAGGAGATGAATGATATGAGAATTAGGGATGATAAAgtatgtcacacactgttaattctcaatacaatatcgtttttttttgtgggataattttttgttgtttgattttttaagtttgagacattgttgcttacggcttgccttatcgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG