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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattactcacttttttttacccattatatgcagtagttttgttgttagattttttctttataggaatttatgttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA

Basic information

species Glycine max
transcript GLYMA10G40730.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g57400.1 (Oryza sativa), 3'ss of exon 3
gtattattactcacttttttttacccattatatgcagtagttttgttgttagattttttctttataggaatt-tatgttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
       ||   |  |||    |   |      ||  |  |||| || | | |||     |  || |  ||  | ||    || ||||| |||||||| || ||||| ||  | ||||||||||| |||||||||||  | ||||| || |  || || |||||||| ||||||||||||||||| 
------gtaactatctttccagattaaaccagcgcttttcttttcttttcatattggagatg-atggacatgatttgcatatgcagGTTTATTGAGAGAGCACAGGCTCTTCTTCATGGAGATCTCCACACTGGTTCCATCATGGTGACACCAGATTCTACTCAAGTGATTGATCCAGAATTTGCT

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G464137_T03 (Zea mays), 3'ss of exon 3
gtattattac-tcacttttttttacccattatatgcagtagttttgttgttagattttttctttataggaatttatgttc-----ctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
   | ||||| |||||   ||  |   | |     |    ||||||||  |  |  |     || |     ||| || |      ||| ||||| || ||||| || || || || || ||||||||||| |||||||||||| | ||||| |||   |  ||||||||||| ||||||||||||||||  
--gtaattacctcactgaattgaaattagtggccacctgtgttttgtttctgtacatgggaattgtgactttttttggtttccaactgcagGTTTATCGAGAGAGCTCAAGCTCTGATTCATGGAGATCTCCACACTGGTTCTATCATGGTGACCGAAGGTTCAACTCAAGTCATTGATCCAGAATTTGGG

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattattactcacttttt--tttacccattatatgcagtagt-tttgttgttagattttttct-ttataggaatttatgttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
       ||     ||| |  ||| ||  | || | |  |||  |||| |  ||  | |   |    || |    |||||||  |  ||||||  ||| || || || ||  |||||||||| ||||| || ||||||||||| |||||||| |  || ||||| |||||||| |||||||| ||| | 
------gtatgtgttttctcatttcccggtaatttccgctaggatttgctagtatctctgaaccaccattgtgtattatgttgtt--agGTTCTGTGAAAGAGCTCAAGCTTTAATACATGGTGATCTTCATACTGGTTCTGTCATGGTTACTCAAGATTCAACGCAAGTTATAGATCCAGAGTTTTCG

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtattattactcacttttttt--tacccattatatgcagtagttttgttgttagattttttctttataggaatttatgt---tcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                                  ||| ||| |     || | ||  || |  ||  || | | | |      |||  | |  ||  | |    | ||    |   |  || ||||||  ||||||  | || || ||| ||||||||||||| || |||||||| || |||||||||| ||| || ||||||||||| |||||||||||||  
gtactgtttccatatcagtgcctcatttcttgcagtaatataaaatgtttctattaatagcagtttaattctgaaataaacaggttgaaatcctttctaagcctagttagaatctattttgcagGTTCTGTGAGAGATCGCAAGCCCTAGTACATGGAGATCTTCATACTGGTTCAGTTATGGTTACCCCTGATTCGACTCAAGTTATAGATCCAGAATTTGGC

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0091g00080.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtattattactcacttttttttacc-cattata----tgcagtagttttgttgttagattttttctttataggaatttatgttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                                  ||| ||| |   | || | || |   || | ||    || ||||     ||||  |   ||| | |   |||  |       |  || ||||||  ||||||  | || || ||| ||||||||||||| || |||||||| || |||||||||| ||| || ||||||||||| ||||||||||||| |
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|33388365|gb|CA851572.1|CA851572
EST:     GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAAgtattattac ... gttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|192297825|gb|FG988323.1|FG988323
EST:     GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAA                         GTTCATTGAGAGGGCCCAGGCACTA-TACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAAgtattattac ... gttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|207817232|gb|GD787513.1|GD787513
EST:     CTTGAAGTTGCTGAGCTGAAATCCAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: CTTGAAGTTGCTGAGCTGAAATCTAAgtattattac ... gttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
EST: gi|208070000|gb|GD868773.1|GD868773
EST:     GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAA                         GTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC
genomic: GTTCGGGAAGACAATCCGCTGAAGCTTGAAGTTGCTGAGCTGAAATCTAAgtattattac ... gttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcagtagttttgttgttagattttttctttataggaatttatgttcctgtagGTTCATTGAGAGGGCCCAGGCACTAATACATGGAGATCTACACACTGGTTCTGTGATGGTTACCCGTGAATCAACTCAAGTTATTGATCCAGAATTTGCA
                                            tgttcct  CT-rich tract
                  ttagattttttcttta  TA-rich tract