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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtggctctctttgtttttacccattatatgctgtagtttcgttgttagattttttctttataggaatttatggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA

Basic information

species Glycine max
transcript GLYMA20G26580.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g57400.1 (Oryza sativa), 3'ss of exon 3
gtattgtggctctcttt---gtttttacccattatatgctgtagtttcgttgttagattttttctttataggaatttatggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
     ||  || |||||   | ||  |||     | | || |  |||   | || ||  |  |    ||    ||||       || ||||| |||||||| || ||||| ||  | ||||||||||| |||||||||||  | ||||| || |  || || |||||||| ||||||||||||||||| 
-----gtaactatctttccagattaaaccagcgcttttcttttcttttcatattggagatgatggacatg---atttgca--tatgcagGTTTATTGAGAGAGCACAGGCTCTTCTTCATGGAGATCTCCACACTGGTTCCATCATGGTGACACCAGATTCTACTCAAGTGATTGATCCAGAATTTGCT

upper sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattgtggctctctttgtttttacccattatatgctgtagtttcgttgttagattttttctttataggaatttatggtcctgt-agGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
    | ||  | |  |  |||      | | |  |||    |||  | ||   || | |     |      | |||  |  ||| ||||||  ||| || || || ||  |||||||||| ||||| || ||||||||||| ||||||||||  || ||||| |||||||| |||||||| ||| | 
---gtatgtgttttctcatttcccggtaatttccgctaggatttgctagt---atctctgaaccaccattgtgtattatgttgttagGTTCTGTGAAAGAGCTCAAGCTTTAATACATGGTGATCTTCATACTGGTTCTGTCATGGTTACTCAAGATTCAACGCAAGTTATAGATCCAGAGTTTTCG

upper sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtattgtggc-tctctttgtttttacccattatatgctgtagtttcgttgttagattttttctttataggaatttatg---gtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                                  ||| | |    | | | | ||  || |  ||  || ||| | |      |||  | |  ||  | |    | ||        |  || ||||||  ||||||  | || || ||| ||||||||||||| || |||||||| || |||||||| | ||| || ||||||||||| |||||||||||||  
gtactgtttccatatcagtgcctcatttcttgcagtaatataaaatgtttctattaatagcagtttaattctgaaataaacaggttgaaatcctttctaagcctagttagaatctattttgcagGTTCTGTGAGAGATCGCAAGCCCTAGTACATGGAGATCTTCATACTGGTTCAGTTATGGTTACCCCTGATTCGACTCAAGTTATAGATCCAGAATTTGGC

upper sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0091g00080.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtattgtggc-tctctttgtttttacccattatatgctgtagtttcgttgtt-agattttttcttta--taggaatttatggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                                  ||| | |    | | | | ||  || |  ||  || ||| |||      ||| | ||  ||||| |   |||  |       |  || ||||||  ||||||  | || || ||| ||||||||||||| || |||||||| || |||||||| | ||| || ||||||||||| ||||||||||||| |
gtagtgcttccatatcagtacctcatttctttacgtaatataaaatatttctattaatagcagtttaattctgaagtaaacaggttgaaatcctttctatgcctagttagaatctattttgcagGTTCTGTGAGAGATCACAAGCCCTAGTACATGGAGATCTTCATACTGGTTCAGTTATGGTTACCCCTGATTCGACTCAAGTTATAGATCCAGAATTTGGA

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|151408064|gb|EV277872.1|EV277872
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTA-TACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|254322009|gb|GR837423.1|GR837423
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|24205958|gb|BU965211.1|BU965211
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|151395015|gb|EV264886.1|EV264886
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|192298387|gb|FG988433.1|FG988433
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAA-TCCAA                         GTTCATTGAGAGGGCCCAGGCACTA-TACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|10232185|gb|BE801081.1|BE801081
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|254332676|gb|GR844046.1|GR844046
EST:     GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCTGCTGAAGCTTGAAGTTGCTGAGCTGAAATCCAAgtattgtggc ... ggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgctgtagtttcgttgttagattttttctttataggaatttatggtcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACTCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                  ttagattttttcttta  TA-rich tract