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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGATTGATGATATTGGAGGTGTTGAAAATTTTGGAAACAAACTTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaatcagcccttttttccctgtttctacacttattctgtgtcctgcttggtccactaactgataggaattggctgtgatcaaattagtatcaat...

Basic information

species Glycine max
transcript GLYMA13G44940.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G44940.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv09s0018g01270.t01 (Vitis vinifera), 5'ss of exon 11
TGGATTGATGATATTGGAGGTGTTGAAAATTTTGGAAACAAACTTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaa--attaatcagcccttttttccctgtttctacacttattctgtgtcctgcttggtccactaactgataggaattggc-tgtgatcaaattagtatcaat
||| | |||||||||||||||||||||||| | ||||||||||| |||| |||||| |||||  |||  |||||||| ||| |||| ||| |||| |  |||  |||  || ||||   |      |  | || || | ||| ||| |     ||    |   |   || | |    |    | | |   |||   
TGGGTGGATGATATTGGAGGTGTTGAAAATCTCGGAAACAAACTCCTCAGGAGAAGGAAGGATGAAAAACTTCCTGTGTTTGTTCCACCAAAGgttagtatttttcaatcccttttaaacgaacaatg-agtttttttttgtactgttgcactcagatgccagtgaaaaatagtgcatctgtagaatcaaatcc--
















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|209727642|gb|BW652015.1|BW652015
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|51342164|gb|CO983425.1|CO983425
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|13789259|gb|BG651850.1|BG651850
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTTCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCT
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCT
EST: gi|6134416|gb|AW132809.1|AW132809
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|214009438|gb|DB988621.1|DB988621
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|21594248|gb|BQ610100.1|BQ610100
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|7639905|gb|AW734217.1|AW734217
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
EST: gi|7795496|gb|AW780893.1|AW780893
EST:     TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAG                         CAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA
genomic: TTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaat ... ggttggatagCAAACGGTGGATGCTTTACTTGAATCGGGTTATTCTCTAATCAAAGAACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGATTGATGATATTGGAGGTGTTGAAAATTTTGGAAACAAACTTCTCAAGAGAAGAAAGGACCAAAGCCTTCCTGTATTTATTCCTCCAGAGgtaaattaatcagcccttttttccctgtttctacacttattctgtgtcctgcttggtccactaactgataggaattggctgtgatcaaattagtatcaat

- - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA