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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgctttttggttatctttatttcttttattgtagtgttgatttgaaagt...

Basic information

species Glycine max
transcript GLYMA08G20830.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgctttttggttatctttatttct--tttattgtagtgttgatttgaaagt---------
|| ||  |||| ||    |   |  |  |  |||||||  | |||||| | |||||||||||||| ||||||||||| ||||||||||| |||| |  |     |  ||    |  |||     |||| ||||        ||||   ||| || || || |||  |  | | ||||  | |||  |  ||| |         
GTCACTGGCCAAGATTTGAACCTTGTACCAAGATGCCGGCGTGTATATTCACATGCTCATGATTACCATATTAATTCCATTTCAAATAATAGgttagctaccttcctga----tattatggatatctgatcagg-------cttgtaattttgtaattttgattcttgttctgttgttttattggctccaaactgttacacat

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgctttttggttatctttatttcttttattgtag-tgttgatttgaaagt----
||  | || || ||    |   |  | ||| |||| ||  | |||||||| |||||||||||||| |||||||| ||||| ||||  || |||| | |   | | | |     |   ||| || ||| || ||    |   ||      ||  || |||  ||   ||    ||||  | ||  |||  | ||    
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgca---ttgaatattaatctattaagctgtatccctaatgcatt--ttttctccatgagttcatctgtatctatttcttttcatgttgaa

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaa--acctcgagggtt-cctataatagtctgttcagt--gtcaaatcttgctttttggttatctttatttcttttattgtagtgttgatttgaaagt
|| || | ||| || || ||  |    ||  | ||||| ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||||||  ||   |  ||  |    ||  | | ||  ||| | | || |       | |||   |  || ||   |||  |||   ||||| | | |   | ||| |  
GTTACAACCCAAGAAACAAGCCTTGCTGCGAGTTGCCGAAGAGTATATGCTCATGCACATGACTATCATATAAATTCAATATCAAATAACAGgtccttcacatcactacaccagtcacttgtatcagtatatgcatttgaatgtaccttagctaatgtttgagttt--ttcagctattg-aatttgagtatgaca--

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G069631_T02 (Zea mays), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtga------tttgaaacctcgagggttcctataatagtctgttcagtgtca-aatcttgctttttggttatctttatttcttttattgtagtgttgatttgaaagt
|| ||  |||| ||    | |    | ||  || || |  | |||||||||||||| ||||| || ||||||||||| ||||||||||| |||| |      ||    |  |   || |  |||  | | ||||   |  |  |  |||||| | |     | ||   | ||   || |   | ||||   ||      
GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAGgttagtttccttcatgatattatggatatctaataaaatctgcaaaacgatatgatcttgttgtacaaatgtcc--agtttccttgtctcattgttatctta-----

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgt--gatttgaaacctcgagggttcctataatagtc--tgttcagtgtcaaatcttgct--ttttggttatctttatttcttttattgtagtgttgatttgaaagt
|| || ||||| || || ||| |     |  | ||||| ||||||||||| ||||| ||||| || ||||| ||||| || |||||||||||||         |   ||    |    ||| ||||     |||||  ||       | ||   ||||| |||    |||| |  |  |  | | ||   ||      
GTTACAAGCCAAGAAACAAGTCTTGCCACAAGTTGCCGAAGAGTATATGCTCATGCACATGACTACCATATAAATTCGATATCAAATAACAGgtcctgcacatatattcatttgaatgtatcatagctaacgttcaaggttttcagctactgaatttggatatggaaatttttagttctaaattttttgctt------

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G165418_T04 (Zea mays), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG-
|| ||||| |  ||  | |      | ||| |||| ||  | |||| ||| |||||||| ||||| ||||| ||||||||||||||||| ||    || |||||| || | ||   |||  ||   |    | ||  | |   | |||     | |||| || |  || ||||| |  ||     || |        
GTTACCAGTCTAGAAGCAAACCCTGTTGCTAGATGTCGACGTGTATTTGCTCATGCTCACGATTACCATATAAATTCTATTTCAAATAATAGgtcagtaatttgatacattgaattttctcatttcaaggggatccattttgcaacttctccatgggttcatatgcatctctttgagagtttgagtgttcct-----

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 8
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttga--aacctcgagggttcctataatagtctgttcagtgtcaaat--cttgctttttggttatc--tttatttcttttattgtagtgttgatttgaaagt
||||| ||||||||| | ||     ||||| |||| || ||||||||||| |||||||||||||||||||||||||| || |||||||||||||   ||    | ||    |  |||   |      ||  | | |  ||| |   ||  || |  |  |    || | |  | | | | ||  || | | |||    
GTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAGgtaggttattcacccattggaattcaacttgcttccttcttactagcaactgctttatttgtccgcaaaaaattcaatgatgtcactataa-gtcg-tctga----

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgcttt--ttggttatctttatttcttttattgtagtgttgatttgaaagt
|| |||||||| ||||| |   |  ||||| ||||||| ||||| |||||||||||||||||||| ||||||||||| || || |||| ||||| ||      |||      | |||    |  | ||||         || |  ||||     ||| |   | | | | |  ||    | |  || | |    
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttcctaagttttccctcaggttatatgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg--

upper sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 6
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtc-tgttcagtgtcaaatcttgctttttggttatctttatttcttttat-tgtagtgttgatttgaaagt---
||| | |||| |||||||||  || ||||| |||| |||||||| ||||| |||||||| || |||||||| ||||||||||||||||| ||||| ||  | | | |      | || ||||  ||   |  | |||      |   |||     | | || |  |  || || | | | ||| || | |       
GTATCAAGCCCTGAGACCAGCCTGGTGGCTAGATGTCGTAGAGTTTATGCTCATGCTCACGACTATCATATCAATTCTATTTCAAATAATAGgtggttccacaaccca-----tactttaattctcgcatataatgtagctgttctgtttacatatctgttcaccttgttcatgtattgggtttatcttatgacctt

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|193511886|gb|FK469995.1|FK469995
EST:     GTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG                         CGATGGCGAAACTTTCATATCAGCTGATGATTTACGAATAAATCTTTGGAA
genomic: GTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaa ... tatctgctagCGATGGCGAAACTTTCATATCAGCTGATGATTTACGAATAAATCTTTGGAA
EST: gi|7796415|gb|AW781812.1|AW781812
EST:     GTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG                         CGATGGCGAAACTTTCATATCAGCTGATGATTTACGAATAAATCTTTGGAA
genomic: GTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaa ... tatctgctagCGATGGCGAAACTTTCATATCAGCTGATGATTTACGAATAAATCTTTGGAA