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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag

Basic information

species Glycine max
transcript GLYMA02G42560.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 18
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaatt-ctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtattt-ctgctgatgtatgttcctctaaataatatggaacag
||| ||| ||| | || |||||||| ||||||||| | ||||| ||||| |  || ||||| || || ||||||||| | ||||| || |||||||||||||| || || | | |    |        | || |||||   |||   | |||| | |  ||| |  |  |   ||  | ||    || |  |  || ||| |   | | |||        
ATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCTATTTGAGCTCCAGgtagttactcttactcctgatg-----ttggtatttcttaaggtggcataccttaat--attaaatttctcaacatggcatgcattgatattaaattttctttatattcatag-------

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G477336_T01 (Zea mays), 5'ss of exon 7
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag
| | ||||||  | || |||||||| ||||| ||| | ||||||||||| |  || ||||| || || ||||||||| | ||||| ||  |||||||||||||||| | || |   || |  | ||    ||| ||   |  |    | | |  |  || ||  | |  | |  |  | | | | |      |||   |    |              
ACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAGgtaatt-tctcttgctgacagcagaatgcctttctcaaattttgcgtgtctttctcaaaatgcaacac-acctgagttttctttac------atgcaacagcgag-------------

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G352837_T01 (Zea mays), 5'ss of exon 7
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag
| | ||||||  | || |||||||| ||||| ||| | ||||||||||| |  || ||||| || || ||||||||| | ||||| ||  |||||||||||||||| | || |   || |    ||    ||| ||   |  |    | | |  |  || ||  | |  | |  |  | | | | |      |||   |    |              
ACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAGgtaatt-tctcttgctgacagcggaatgcctttctcaaattttgcgtgtctttctcaaaatgcaacac-acctgagttttctttac------atgcaacagcgag-------------

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G591258_T01 (Zea mays), 5'ss of exon 11
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgc-tgatgta-tgttcctctaaataatatggaacag-
| | ||||||  | || |||||||| ||||| ||| | ||||||||||| |  || ||||| || || ||||||||| | ||||| ||  |||||||||||||||| | || |   || |    ||    ||| ||   |  |    | | |  |  || ||  | |  | |  | || | | | | ||   ||  |     | | ||| |      ||  
ACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAGgtaatt-tctcttgctgacagcggaatgcctttctcaaattttgtgtgtctttctcaaaatgcaacac-acctgaggtttctttacatgcaatagcgaggacccagata-tccatttcaag

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 20
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag
| ||||||||| | ||||||||||| ||||| ||||| ||||||||||| | ||| || ||||| |||||||||||||| || |||||||||||    |||||||| | |||         | |  ||  | |   |  ||  || |  |  |||  |    |  |  |||    | |||  ||    |||| | | |||||   | |||        
ACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCATACTTGAGTATGAGgtaattttatca---------agatcctgctgtcattcctgtaaacaagcaccatgcagc--aatttgtatt---tttatgacttacaatgtct-tccctctgtgtgatag-------

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 20
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag
| ||||||||| | ||||||||||| || || || || |||||||| || | |||||||||||| || ||||||||||| || ||||| |||||    |||| ||            | | |||| ||  | |   |  ||  || |  |   |||   |||      |||  | | |  || || | |   ||||| ||||   |   || |     
ACTGTGAGCAACTTGGTGTTGATGCATGTATTAAGCTCTTTGAGCAGTTCAAGTCATATGAAGGGCTATACTTTTTCCTAGGTTCATATTTGAGTATGAGgtgatat----------agataaaatctgatctcgtttctgtaaacaagcacgattc--ttg------tattta-tatgcttatgtttaca-atgtttctctctgtgcgatag-----

upper sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 20
ATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctc-atttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacag
||| |||||||||||||||||||   ||| ||||||| |||||||||||||  ||||| |||||| |||||||||| || || || || |||||||| ||||||||  || |   | ||  || |||||   ||||| | |||     || || |  | |||  |  ||| ||  ||   |||||  || |  |||   |                   
ATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTTATTTGAGCTCAAGgtaatttgttta---gtaaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacag-----------------

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|207821924|gb|GD796869.1|GD796869
EST:     AGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAG                         TGAGGATCCTGATATTCACTTTAAGTACATTGAGGCAGCGGCAAAGACTGG
genomic: AGGTCATATGAAGGACTGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattcttt ... tatggaacagTGAGGATCCTGATATTCACTTTAAGTACATTGAGGCAGCGGCAAAGACTGG
EST: gi|209720996|gb|BW682475.1|BW682475
EST:     TGTACTTTTTCCTTGGATCATACTTGAGCTCCAG                         TGAGGATCCTGACATTCACTTTAAGTACATTGAGGCAGCAGCAAAGACTGG
genomic: TGTACTTTTTCCTTGGATCATACTTGAGCTCCAGgtaattcttt ... tatggaacagTGAGGATCCTGATATTCACTTTAAGTACATTGAGGCAGCGGCAAAGACTGG