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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgtacatagctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag

Basic information

species Glycine max
transcript GLYMA15G10940.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgtacatagctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag
|||||| ||||| ||||||||||| || || || || || ||||| ||||| ||||| ||||| ||||||| |||||| || ||||| || || ||||| ||||    ||||| |||  | | | ||   || |  |   || || |   | |     |  ||  | | |   ||  |               
AAAAAATATTTTGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTTGCAAGAGTTGCTTTCAGTGATACACCAACTGCCATCTTTTGGACGgtatatcacttttcccccaacaatttc---tttatgtcctcaaagtttcttataagcatctatttcttgtatttttag---------------

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G089484_T01 (Zea mays), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgt-acatagctctctttct--cagttcatcacctcttaattccgtttgtttgcttgcag
|||||| ||| | ||||||||||| || || || || || |||||||||||  | || ||||| ||||||||||||||||| || || || || ||||| ||||||   |||||  |    |||||    |||| ||||  |   ||| |||||||    ||   |    ||||| |   ||||            
AAAAAATATTCTGGCAAATGCTGATTGTAAGCTCAAAATATGTGACTTTGGCTTAGCAAGAGTAGCTTTCAATGATACTCCAACCGCCATCTTTTGGACGgtatgacattttttgacc---actatgctattcagttgttgctaggctatctttctagtggtgtctagtttcttactcttgttttag---------

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G017351_T01 (Zea mays), 5'ss of exon 2
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatga-atctttttccctgaaactatcaccttcaattgtacatagctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag
|||||| ||| | ||||||||||| || || || || || ||||| ||||| || || ||||| ||||||| ||||||||| || || || || |||||||||||  |||||||   |    |   |   |     |||||| |||      ||   ||      | |   ||||| | ||  | || ||  ||
AAAAAATATTCTGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTAGCAAGAGTAGCTTTCAGTGATACTCCAACCGCGATCTTTTGGACAgtatgccatcttttcaaccagtatacttttcaattcttgtacctagtctggctttgtaga-----atcggctaatttc-ttaatctgtttttag

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgtacatagctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag---
 |||||||| || ||||||||||| |||||||| ||||| ||||| ||||| ||||| ||||| || ||||||||||| || ||||| || ||||||||  | ||| |  |  |   | |||   | ||  |  |    |  |  |||| |||   |    | ||  | || |||||   || || ||    |   
CAAAAACATATTGGCAAATGCTGATTGCAAACTCAAGATCTGTGATTTTGGACTTGCAAGAGTCGCATTCAATGATACACCGACTGCGATATTCTGGAC--Tgtgagtagtagtaatttaaatgcttactctttac--aagtttactctttttggtatgaaaccaattttttattcctactgctttctgatcgcag

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttc-cctgaaactatcacct-tcaattgtacatagctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag-------------------------------------------------------
||| ||||| ||||||||||||||||||||||| ||||| ||||||||||||||||| ||||| || || ||||||||||| |||||||| || |||||||||||  ||||   |   ||    | |  | | |||||       |    ||| | |   ||  | || |   | ||  || ||  |   |   |                                                       
AAAGAACATCTTAGCAAATGCTGACTGCAAACTCAAGATCTGTGACTTTGGTCTTGCAAGAGTAGCCTTTAATGATACTCCGACTGCTATATTTTGGACAgtatgcttcttccccatttgtgtgtgtttcttgtcaatcaattgcaatggtctatttttctttgtgacttaa-agttgtgtatgggtaaataatgatgtttccctatgaatatctctagaattgacagctttaatttcatgtgattacag

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatcttt----ttccctgaaactatcaccttcaattgtacatagctctctttctcagttcatcacctcttaattccgtttg--tttgcttgcag-----------------------------------------------------
||| ||| | || ||||| |||||||| |||||||| |||||||||||||| |||||  ||||||| || | |||| |||| || ||||| |||||||| |||||    |      || |  |||| ||  |   | |   || |   |    | || | | || |   | |||     | ||     ||| ||  |||                                                     
AAAGAACGTGTTGGCAAACGCTGACTGTAAACTGAAAATTTGTGACTTTGGACTTGCTCGAGTGGCCTTTAGTGATGCTCCAACAGCTATCTTCTGGACGgtatggtcttccgccattgctggaaattaaaaatattataggttctcggaaaccattgtta-ttaagtccttctaggcacggtcaaactttactgccaggaaaagttctgaagctgtgtaacctgcatgaattctgttgttgggtacttcag

upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgtacat-----------agctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag----------------------------------------------------------------
||| ||  | || ||||| ||||| ||||| ||||| |||||||| ||||| |||||  | |||||||||| |||| | || || || ||||||||||| |||||    |||  |||||  | ||  |     ||| |||| |           |  ||| |    |   | |   ||| |||| ||       | | |   |                                                                 
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatgg---tttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag

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|10238909|gb|BE807805.1|BE807805
EST:     GTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACA                         GATTATGTTGCAACACGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTT
genomic: GTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatct ... ttgcttgcagGATTATGTTGCAACACGGTGGTATAGGGCTCCTGAGTTGTGTGGATCCTTT
EST: gi|193585418|gb|FK539097.1|FK539097
EST:     GTCTTGCCAGAGTGGCTTTCAACGATACTCCCACTGCTATTTTCTGGACA                         GATTATGTTGCAACACG
genomic: GTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatct ... ttgcttgcagGATTATGTTGCAACACG