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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAGGAACTTCATGAAGAGCCAAATTAAAAGGGCAAGAATGTTTTTTGATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaattccaaacatttatcattatataaaaacttttctgtggttgaaagaataaaaaccatcggttatacttgaagtgttctcttaaatattatta...

Basic information

species Glycine max
transcript GLYMA14G39050.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G39050.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G300348_T01 (Zea mays), 5'ss of exon 2
GTGGAGGAACTTCATGAAGAGCCAAATTAAAAGGGCAAGAATGTTTTTTGATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaattccaaacatttatcattatataaaaacttttctgtggttgaaagaataaaaaccatcggttatacttgaagtgttctcttaaatattatta
|||||| |||||||||||||| || || || ||||| || ||||||||||| |||||||| |  || || || |||||     | |||||||||||||| |||||      |||    ||  ||||    |   | | |      |       | |        |  ||||   ||| ||                    
GTGGAGAAACTTCATGAAGAGGCAGATCAAGAGGGCCAGGATGTTTTTTGAGGAGGCAGAGAGAGGGGTAACTGAGCTCTCACAGGCTAGCAGATGGCCAgtaagtccactcaa---cttcacatttcccacccagtatagcacagcatcctcacttccttttctttgttaccattgcag--------------------
















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|13790571|gb|BG653162.1|BG653162
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|192307399|gb|FK000755.1|FK000755
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|9984439|gb|BE658547.1|BE658547
EST:     GAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: GAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|207805285|gb|GD777291.1|GD777291
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAG
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAG
EST: gi|7691635|gb|AW759759.1|AW759759
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|192306702|gb|FG998856.1|FG998856
EST:     GCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: GCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|14008589|gb|BG725193.1|BG725193
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|209725819|gb|BW659935.1|BW659935
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
EST: gi|192307398|gb|FK000754.1|FK000754
EST:     ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCT                         GTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT
genomic: ATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaatt ... tgttttgtagGTATGGGCGTCTTTGCTATTGTATCGCCAAATATTGGACGAGATAGAAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGAGGAACTTCATGAAGAGCCAAATTAAAAGGGCAAGAATGTTTTTTGATGAGGCAGAAAAGGGAGTGACGGAGCTTAATGAAGCTAGCAGATGGCCTgtaagaaattccaaacatttatcattatataaaaacttttctgtggttgaaagaataaaaaccatcggttatacttgaagtgttctcttaaatattatta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaaaa