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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGATAGAGACCCCATGCCTCTTCACCGTGCTGCAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatcaatcctttaaattaaaaaatgtcccgtatttgtgtacatgcttaactaaataaataaataaaaaagaaattaacttatttagcaataaatt...

Basic information

species Glycine max
transcript GLYMA07G00330.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00330.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 21
GCGGATAGAGACCCCATGCCTCTTCACCGTGCTGCAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatcaatcctttaaattaaaaaatgtcccgtatttgtgtacatgcttaactaaata-aataaataaaaaa-gaaattaacttat--ttagcaataaatt--------------------------------------------
||||| |||||||| |  ||||||||| | ||||||||| || | |||||||| ||  ||||||| |||||||  |||||||||||  |  |||   ||| ||  | || ||    ||  |   ||  ||||  | |  |   |     ||||  |||| ||  ||   || |   |  | ||| ||                                             
GCGGAGAGAGACCCAACACCTCTTCACAGGGCTGCAAAGCTGTTGATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAGgt--agctca---cttgaacatgaataaaaaaccaaaggagta-acattttaacatggttttgggaaatggaaaatgatgttcttttgtagctgactatatatactgggtggtagtctaaccatttgatcatcaattatctatggcag

upper sequence: GLYMA07G00330.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 5'ss of exon 17
GCGGATAGAGACCCCATGCCTCTTCACCGTGCTGCAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgt-gtatatcaatcctttaaattaaaa---aatgtcccgtattt---------------------------gtgtacatgcttaactaaataaataaataaaaaagaaattaacttatttagcaataaatt-----------
|| || |||||||| |  ||||||||| | |||||||||||| | |||||||| ||  ||||||| |||||||  ||||||||||| | | |      | | || | ||||   || |      ||||                            ||| | | | || || | || ||| |       | | |  |   ||||    || ||||           
GCTGAGAGAGACCCAACACCTCTTCACAGGGCTGCAAAGTTGTTGATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAGgtagcacacttgaacatgaattaaaaacaaaaggaataacattttaacatggttttgggaaatggaaaatgatgttctttcgtagctgactatatatactgggtggtagtctaaccatttgatcatcaattatctatggcag

upper sequence: GLYMA07G00330.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 5'ss of exon 15
GCGGATAGAGACCCCATGCCTCTTCACCGTGCTGCAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatcaatcctttaaattaaaaaat----gtcccgtattt------------------------gtgtacatgcttaactaaataaataaataaaaaagaaattaacttatttagcaataaatt-----------
||||| |||||||| |  ||||||||| | ||||||||| || | |||||||| ||  ||||||| |||||||  |||||||||||   |  |       | ||| ||||| |    |  |   ||||                         ||| | |   || || | || ||| |       | | |  |   |||||   || ||||           
GCGGAGAGAGACCCAACACCTCTTCACAGGGCTGCAAAGCTGTTTATTAATTCCCAAATGGAAGATGGTGATTTTCCCCAACAGgtagctcacttgaacatgaataaaaaactaaaggagcaacattttaacatggttttgggaaatggaaaatgttcttttgtagctgactatatatactgggtgggagtctaaccatttaatcatcaattatctatggcag

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|58014627|gb|CX701369.1|CX701369
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|214008349|gb|DB986291.1|DB986291
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|9987711|gb|BE661819.1|BE661819
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|6914837|gb|AW396367.1|AW396367
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|4395927|gb|AI494924.1|AI494924
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|208148712|gb|GD951210.1|GD951210
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|10844420|gb|BF067711.1|BF067711
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATTGTTGCATTATCCAATGTA
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCA-TGTTGCATTATCCAATGTA
EST: gi|209699719|gb|BW652091.1|BW652091
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|26060234|gb|CA803148.1|CA803148
EST:     CAAAGTTGCTCATTAATTCTCATTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|209707635|gb|BW683428.1|BW683428
EST:     AAAGTGTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: AAAGT-TGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|193686395|gb|FK626824.1|FK626824
EST:     CTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|209724228|gb|BW666593.1|BW666593
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
EST: gi|213588945|gb|DB984416.1|DB984416
EST:     CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAG                         GAAATCACGGCCGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC
genomic: CAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatca ... cttttggcagGAAATCACGGGAGTATTCATGAAAAATTGCATGTTGCATTATCCAATGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGGATAGAGACCCCATGCCTCTTCACCGTGCTGCAAAGTTGCTCATTAATTCTCAGTTGGAAGAGGGTGATTGGCCCCAACAGgtgtatatcaatcctttaaattaaaaaatgtcccgtatttgtgtacatgcttaactaaataaataaataaaaaagaaattaacttatttagcaataaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaaa