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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctacttgaaaaattcaaacagaggacaacatttattagttatgttgacttgtgcaaaattggtttatatgaattgtgattgtcttgaatccctt...

Basic information

species Glycine max
transcript GLYMA18G12830.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G12830.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 5'ss of exon 4
-CAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctacttgaaaaattcaaacagag-gacaacatttattagttatgttgacttgtgcaaa---attggtttatatgaattgtg-attgtcttgaatccctt----------
  || || ||||||||||| ||||| ||||| || ||| ||||||| ||    |||||||||||||| |||||||||||| |   |||||  || ||||||||||    |    |      |   || |  || || | || ||  | |  ||  ||  |  | |   ||  |||||  || ||     ||| ||   ||     |          
ATAACGGGAACTTAGAACAGTGGCTTCATGGTGCCATGCGCCAACATGGTGTTCTTACCTGGGAAGCCCGAATGAAAGTTGTTCTTGGAATTGCTAAAGCgtaagaaacaaaccatcgtccccgtcaaaaagaaaagaattgttcttcactttagctcttttatatgtatatgtttagttgcataacccattttccataactgaattggtatacag

upper sequence: GLYMA18G12830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 5'ss of exon 3
-CAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctacttgaaaaattcaaacagaggacaacatttattagttatgttgacttgtgcaaaattggtttatatgaattgtgattgtcttgaatccctt-
  | ||||||||||||||||||||||||||| || ||| | ||||| || |  || || |||||||| || |||||| | || ||||| || ||  ||||||||||     |||||| | |            | | ||| || | |||||| |    |||   |||  || | | |   ||  |||      | |      
ATAGTGGTAACTTAGAACAATGGCTACATGGAGCAATGCGGCAACATGGAAATCTCACTTGGGAAGCACGGATGAAAATCATTACTGGTACTGCACAAGCgtaagtg--gtttgaaacagtt----------tagcttttgttggatatgttca---atgcttgatta-ttaaaagggtctgcaatttgtacaactttacag

upper sequence: GLYMA18G12830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 4
-CAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctacttgaaaaattcaaacagaggacaacatttattagttatgttgacttgtgcaaaattggtttatatgaattgtgattgtcttgaatccctt---
  | ||||||||||||||||||||||||||| || ||| |  ||||| | || || || ||||| ||||| |||||| |  |   ||| || ||  | |||||||||    || |||  |       |  |  | | |||| | |  || |  |      |    |  |   ||||  |       |||  |  |    |    
ATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAAATCCTTGTTGGTACTGCGCAGGCgtaagtt--gtttaaaatgtgactgttgttgg-accttttacttgaaatttcaaaaacaactctttaaggggatattgacatgctctgtactacaattttacag

upper sequence: GLYMA18G12830.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 5'ss of exon 5
-CAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctacttgaaaaattcaaacagaggacaacatttattagttatgttgacttgtgcaaaattggtttatatgaattgtgattgtcttgaatccctt------
 |||||| ||||||||||| ||||| ||||| |||||| ||||| | || |  ||||| ||||| || || ||||| |||||   ||| |||||||| |||||||| |  ||   ||      || | ||    |   |||  | ||  ||| ||| |  |  |   | || ||||      | |    ||  | | |  |      
ACAATGGCAACTTAGAACAGTGGCTTCATGGAGCTATGCGCCAATATGGCAACCTTACTTGGGAGGCCCGCATGAAGGTTATTCTTGGTACAGCCAAGGCgtaagtccatctctcaa---ctgaaaatagtgtcatcattaagatttgcgtt-actagaaccga---gattaatataggcaattacctcctctatttctatgaaatc

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|18730090|gb|BM525675.1|BM525675
EST:     CACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCG                         CTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATA
genomic: CACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctac ... tggtggcaggCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATA
EST: gi|192331429|gb|FK019902.1|FK019902
EST:     CACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCG                         CTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATA
genomic: CACTTACCTGGGAAGCTCGAATGAAAGTTATAACTGGAACAGCCAAAGCGtaagttctac ... tggtggcaggCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATA