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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGGGGCTCCCTTAGAGCTGCTATGGGACACCCTGCGCCATTTGACCTAAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatatttttcttatttactctatccgaagaaaaagttatattttctttgttaacatgcactaacactttatattatttatgccaagaagaggtgt...

Basic information

species Glycine max
transcript GLYMA03G27460.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27460.2 (Glycine max), 5'ss of exon 10
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 11
AAATGGGGCTCCCTTAGAGCTGCTATGGGACACCCTGCGCCATTTGACCTAAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatatttttct----tattta---ctctatccgaagaaaaagttatattttctttgttaacatgcactaacactttatattatttatgccaagaagaggtgt
| |||||| ||  || ||||||| |||||||| || | ||| ||||| || | ||||||||| |||||||||||||||||    || |   ||||  ||||| |    |||| |||    ||||||   |  | |   |||| | |   |      ||||| | | |   ||| | |      | | ||||                
ACATGGGGATCGGTTCGAGCTGCAATGGGACATCCAGAGCCTTTTGAACTGAAATATGTTGCGGTTGGGAATGAAGATTGTTTTAAGAGTTACTACAGAGgtttttgcatttctctctgttatttaaaaccattttgaaagatacaaacaagagagctttggttatactaacttaaatacacaactttttacag-------------
















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|7796787|gb|AW782181.1|AW782181
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|6134767|gb|AW133160.1|AW133160
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|9819826|gb|BE555402.1|BE555402
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|19348102|gb|BM892634.1|BM892634
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|21888705|gb|BQ741918.1|BQ741918
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGGAATTCTACAGTGCAATAAAAAGTGCT
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCT
EST: gi|9819476|gb|BE554989.1|BE554989
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|6071989|gb|AW101436.1|AW101436
EST:     AGATATGTTGCTGTTGGGAATGAAGATTGCGGNNNNNNNGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AGATATGTTGCTGTTGGGAATGAAGATTGCGG-AAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|21600500|gb|BQ610831.1|BQ610831
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
EST: gi|27424547|gb|CA936067.1|CA936067
EST:     AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAG                         GAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC
genomic: AAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatat ... ttcctgctagGAAACTACCTGAAATTCTACAGTGCAATAAAAAGTGCTTATCCAGATATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATGGGGCTCCCTTAGAGCTGCTATGGGACACCCTGCGCCATTTGACCTAAGATATGTTGCTGTTGGGAATGAAGATTGCGGAAAAAAGAACTATCGAGgtgtgcatatttttcttatttactctatccgaagaaaaagttatattttctttgttaacatgcactaacactttatattatttatgccaagaagaggtgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC