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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag

Basic information

species Glycine max
transcript GLYMA04G39390.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggttt--gaagccatttgaaaaactctac--ttttgttcactttttccag
||||||||| |||||||||||||| || |||||||| || ||||| |||||||| |||||||||||||| || |||||  | |||  ||||  || | |  | | | | ||||   | || |||   ||||   |||    |     ||| ||   |  ||   || |    ||  | |   
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaat--aatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag-

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag
 ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| || || ||||||||||| |||||| | |||  |||||  ||||   | |||| || | |    |  |    |  | |  |||||     |   |  || |  | | |  | |   | || |||
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtt--tgttacttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgc---tcttacag

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G27740.2 (Arabidopsis thaliana), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag-----------
||||||||||||||| |||||||||||||||||||| ||||||||||| |||||||||||||| ||||| ||||||||  | |||  |||| ||||     ||   || |    |      |       | || | | ||    | | |  |  | |     ||||   | |                 
GTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTGgtaagtggcagtttcgaaactttcgtatacactaggaacttatgttctcaatgtttcttattacatttgtaaatgtttgttgtagatgatgaagaatctg

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G27740.1 (Arabidopsis thaliana), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag
||||||||||||||| |||||||||||||||||||| ||||||||||| |||||||||||||| ||||| ||||||||  | |||  |||| ||||     ||   || |    |      |       | || | | ||    | | |     |  | || |      || ||  ||
GTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTGgtaagtggcagtttcgaaactttcgtatacactaggaacttatgttctcaatgtttctta----ttacatttgtaaatgtttgttgtag

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag
 ||||| |||||| | || || |||||||||||||| ||||| ||  | |||||||| ||||||||||| || || ||  |||||||||||  | |   | ||  |||||| |||     ||| | |  |||| |   || | |||| |||     |||   |     |  |  ||||
ATATCAGGAAATTCTTACAGACCCTAGTTATGCTGGTCAGTTCGTCTTAATGACAAATCCACATATTGGCAACACGGGGGTAAATTTTGgtagggga--atttcttaattctaata---tttgcaaccttgtgttggtaaactatttaaaactaaatacagatcgcttccctgcccag

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S11_3V6.1 (Physcomitrella patens), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtg--gtttgaagccatttgaaaaactctacttttgt-tcactttttccag---------
 ||||||||||||||||| ||||| |||||  | || || ||||| ||||||||  | ||||||||||| ||||| ||  | ||  |||||    ||||     |   |||  | |||| |   ||   |||   | ||    | ||| ||   ||   | | | |  |||   |   |           
TTATCAAGAAATTTTGACCGATCCAAGTTACTCCGGGCAATTTGTACTCATGACTCAACCACATATTGGCAATACAGGGGTCAACCTTGgtaccagttttgcgacct-ttcttaagagtgtgatattagtgtttcggttttgtctattagagtgacctgattgtggcatcagcatcgtcgtagcatttgc

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ07419 (Selaginella moellendorffii), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag
|||||| || ||| | |||||||| ||||||||||||||||| ||| | |||||  | || || |||||||| |||||| | ||||||||| ||| ||| | |||| |  |   || || || ||   |||   | |  ||                                     
GTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAGCCGCACATTGGGAACACTGGCGTCAATTTTGgtcagtttttccgttctcaacc--ttgggtttt-aacatatggtttctctag-------------------------------------

upper sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ19894 (Selaginella moellendorffii), 5'ss of exon 3
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag
|||||| || ||| | |||||||| ||||||||||||||||| ||| | |||||  | || || |||||||| |||||| | ||||||||| ||| ||| | |||| |  |   || || || |    | |  || ||       | |                              
GTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAACCGCACATTGGGAACACTGGCGTCAATTTTGgtcagtttttccgttctcaacc--ttgggttttaacataaagatgtctggtttttctag------------------------------

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|298163265|gb|HO011998.1|HO011998
EST:     GTTTGTGCTCATGGCAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGG
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGG
EST: gi|208289150|gb|GE081467.1|GE081467
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|298180620|gb|HO025707.1|HO025707
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAGTTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|16997114|gb|BM086486.1|BM086486
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|298166083|gb|HO009054.1|HO009054
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|120531240|gb|EH259373.1|EH259373
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|213605660|gb|DB972308.1|DB972308
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|192322448|gb|FK014929.1|FK014929
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|33388074|gb|CA851281.1|CA851281
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|18735504|gb|BM528801.1|BM528801
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|209726906|gb|BW680261.1|BW680261
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|208063827|gb|GD861981.1|GD861981
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|192326456|gb|FK017713.1|FK017713
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT