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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGACTACTGTGTCAAATGATTCTGACACGCATGATGACTTCAAGCCAGCTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtatatcaaatcaatctttcaacagtgaattattattttcttcttcatgttttgataatgttgagtaatctgtaacttgaactttttggtcactgtgattaatatgtgtag

Basic information

species Glycine max
transcript GLYMA08G22430.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22430.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 3
CTCGACTACTGTGTCAAATGATTCTGACACGCATGATGACTTCAAGCCAGCTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtatatcaaatcaatctttcaacag--tgaattattattttcttcttcatgttttgataatgttgagtaatctgtaa--cttgaactttttggtcactgtgattaatatgtgtag
||||||||||||| | |||||| ||||||| |||||||| |||||  |  ||||||||||||| | ||| ||  || ||||   | || || ||||||||||| |     ||||  | |    |  ||||   |||| | ||  ||    |||  |   | |   | |||    | |||||||   |   | || ||| |    |  | |  | |      
CTCGACTACTGTGCCCAATGATCCTGACACACATGATGATTTCAAATCCACTAATAAGCTTGAAAGTTCAGGGCTTGCTTTACAAGATATTGTTGAGCAGgtaggttgtcatcatctgatgtatgaaacacattgaactttttattgtcccttgctaactagtgtaagtttttcattctgtaagattcacatttattgattgtagaaactggtgtag----
















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|10845845|gb|BF071195.1|BF071195
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|19936158|gb|BQ080747.1|BQ080747
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|7042125|gb|AW472019.1|AW472019
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|13790877|gb|BG653468.1|BG653468
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|14992101|gb|BI317774.1|BI317774
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|15000045|gb|BI320859.1|BI320859
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|192326383|gb|FK015900.1|FK015900
EST:     TTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATAGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|151403203|gb|EV273013.1|EV273013
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|58023967|gb|CX710708.1|CX710708
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|58017876|gb|CX704618.1|CX704618
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|192325587|gb|FK019443.1|FK019443
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|58024154|gb|CX710895.1|CX710895
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|151412930|gb|EV282742.1|EV282742
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|10255366|gb|BE823132.1|BE823132
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
EST: gi|58018211|gb|CX704953.1|CX704953
EST:     CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtat ... atatgtgtagGATGTCAAGGATAATCCTGTTATGGTTTACATGAAAGGTGTGCCTGATTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCGACTACTGTGTCAAATGATTCTGACACGCATGATGACTTCAAGCCAGCTAATAAGCTTGAGAATTCTGGCATTTCTTTGTCAAATGTTATTGAGCAGgtaagggtatatcaaatcaatctttcaacagtgaattattattttcttcttcatgttttgataatgttgagtaatctgtaacttgaactttttggtcactgtgattaatatgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG