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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata...

Basic information

species Glycine max
transcript GLYMA10G42720.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os11g29200.1 (Oryza sativa), 5'ss of exon 5
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactatt-atatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata
|| || |  || ||| | || || || |||||||| || ||||||||||| ||||||| |||  |||||||||||||||| || ||||| || || |||||| |||   |   |||       | |||||  || |  |  | |||||| ||    ||  || | ||| ||     |    |  | ||| | |  |  || 
GGTGACATGGGACCTATTCGGTGTTCCCGTTGCAAAGCATACATAAATCCTTTCATGAGATTTGTTGATCAAGGAAGGCGCTTTATCTGTAATTTATGTGgtaagtgtcaaagatacacatatttcaattaatctttat-ttattgtttattaatttactctttagaattttattgtttggttggcatagactgctgcatt

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g24250.1 (Oryza sativa), 5'ss of exon 5
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatctgctatacaattgctcatcctactgttgtttgttgtcata---tactatggaagttgccgatgacatgcggatataattttttata
|| | ||  || ||| |  | || ||||| ||||| || ||||||||||| ||||||  ||||||||||||||| | || |||  |||| ||||| |||||| ||   ||  | ||      |   |||  | | | | || ||   || |    |    | || | ||  ||    || |  |  || |   | |    |  
GGAGGGATGGGACCTATTAGGTGTTCACGCTGCAAAGCATACATAAATCCTTTCATGCGATTCATTGATCAAGGGAAGCATTTTGTCTGTAACTTATGTGgtaagggatac-agatgcaaactctcatttattagcttgcttttcaatgctagtttgtcttgctgtcgagcttatttattatttctggctgccagtggaaa--

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G019236_T08 (Zea mays), 5'ss of exon 5
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata--------
|| ||||  || ||  | || || || |||||||| || ||||||||||| |||||||||||  |||||||||| |||| |||| |||| ||||| |||||| ||  ||      |  |||  |    | |    |  |   | |||  ||  |||   || |  ||| |   | | ||| |  | ||  |  |  ||          
GGAGAGATGGGACCCATTCGGTGTTCTCGTTGCAAAGCATACATAAATCCTTTCATGAAATTTGTTGATCAAGGGAGGCATTTCGTCTGTAACTTATGTGgtgagggct------taagctgcattggttccatcctcatgatggttcattagcattctctgtaaaagcttatgct-aca-gtagctactagctactacttactgctg

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G075680_T01 (Zea mays), 5'ss of exon 5
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtact---attatatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata
|| ||||  || ||  | || || || |||||||| || |||||||| || |||||||||||  |||| ||||| |||| ||||||||| ||||| |||||| ||  ||     |  ||    |      ||  | ||  | | || || |  ||||| | | ||||  |   ||  ||   |      | | | ||||  | 
GGAGAGATGGGACCCATTCGGTGTTCTCGTTGCAAAGCGTACATAAACCCTTTCATGAAATTTGTTGACCAAGGGAGGCATTTCATCTGTAACTTATGTGgtgagggcttaagctgcattgattccggcctta-taataattcagtagtattctgtcaaagattatgcca-cagcacatactactgatctttgaattttgct-

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G32640.1 (Arabidopsis thaliana), 5'ss of exon 6
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatct-gctatacaa-ttgctcatcctactgttgtttgttgtcatatactatggaagttgccga-tgacatgcggatataattttttata
|| ||| |||| ||||| || || ||||| || |||| |||||||||||| |||||||| |||||||| |||||||||   |||||||| || || |||||| | |  || | | |   | ||| |||  | |  |  ||   ||| |   |    |  | | || | |  |  | | | |       ||  ||| ||     
GGTGAGGGTGGGCCTGTTCGATGTTCACGCTGTAAGGGTTACATAAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATCTGTAATTTCTGTGgtaaatgttactgttttcagttatgcaagctacaaaatctgaagttatagctatgtaactgcaatagtatgtatcaagttatgaaataattgaatattcc---

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G44340.2 (Arabidopsis thaliana), 5'ss of exon 7
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatctgctatacaattgctcatcctactgttgtttgttgtcatat--actatggaagttgccgatgacatgcggatataattttttata-
|| |||||||| |||||  | || |||||||| ||||  ||| | ||||| |||||||| |||||||| |||||||||   ||||| || |||||||||||| | || || | | || | |||| ||  || |||  ||   | | ||  ||  ||||  | |     | |           |  | |   || | |   || 
GGTGAGAGTGGCCCTGTTAGATGTTCACGTTGTAAGGGCTACGTGAATCCTTTCATGAAGTTCATTGACCAAGGAAGGAAGTTCATATGTAACTTGTGTGgtaattattactctttccg-tatagaaaagc-cata-taaaatgggttactgctatatcaagtgcaataatgagtaccaggttatgaaagaaactataattac

upper sequence: GLYMA10G42720.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv19s0014g05310.t01 (Vitis vinifera), 5'ss of exon 6
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtacta-ttatatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata-----
|| || ||||||||||| || ||||| |||||||| | |||||| |||||||||||||| || |||||||| ||||||||||||||||| ||||| |||||| ||||  |  | | ||||   |  | ||  | ||    || || | | || ||    | | ||||| ||     |  | |     |  | |||| ||       
GGAGAAAGTGGTCCTGTTCGATGCTCCCGTTGCAAAGGTTACATTAATCCCTTCATGAAGTTTATTGATCAGGGAAGGCGTTTCATCTGTAACTTATGTGgtgagtataagctgtttctgtattctatttatttattt--cttttatattttatc---cattctggaaatt-tttttttcttttatttccatttttgtaatttaat

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|193389356|gb|FK356733.1|FK356733
EST:     CAACTTGTGTG                         GATTTAGTGATGAAACTCCACGGGACTACCACTGCAATTTAGGTCCAGATG
genomic: CAACTTGTGTGgttagtacta ... tctgttacagGATTTAGTGATGAAACTCCACGGGACTACCACTGCAATTTAGGTCCAGATG
EST: gi|193414018|gb|FK376612.1|FK376612
EST:     CAACTTGTGTG                         GATTTAGTGATGAAACTCCACGGGACTACCACTGCAATTTAGGTCCAGATG
genomic: CAACTTGTGTGgttagtacta ... tctgttacagGATTTAGTGATGAAACTCCACGGGACTACCACTGCAATTTAGGTCCAGATG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGGAGAGTGGTCCTGTCCGTTGCTCACGTTGCAAGGCTTACATAAATCCCTTCATGAAATTCATTGATCAAGGAAGGCGTTTCATCTGCAACTTGTGTGgttagtactattatatctgctatacaattgctcatcctactgttgtttgttgtcatatactatggaagttgccgatgacatgcggatataattttttata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA