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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagttagcaactatgttcagtcaaactagtccc...

Basic information

species Glycine max
transcript GLYMA05G07020.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g70960.2 (Oryza sativa), 5'ss of exon 3
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctg-aaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagttagcaactatgttcagtcaaactagtccc-
|||| ||||  |||| |||||||||||| ||||||||  ||| |   ||   |||||| ||||| |||   ||||||||||| |||||||||||||| |||| |||||  |    | | || | |   ||        | || |   |     || |  ||| || |      || | | ||  |   || ||    |    
TTGCTACAATTGCATCTGCTGATGAAGCGGAGCATGGGTTGGAAGCCCCACACTATCCCTGGCCACATGCTGGCATCCTTAGCTCATATGATCATGCATCgtaagtttatcgaatagacttatttttgttaaatagcttgttctgactaga-gactacttgactt-catttcaagaagcaatcgtgcatctaatatataatg

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G158479_T04 (Zea mays), 5'ss of exon 3
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagtta-gcaa-ctatgttcagtcaaactagtccc---
|||| |||| ||||| |||||||||||||||||||||| |||||   ||    ||||| ||||| |||   |||||| | || || |||||||| || |||| |||     |   |  | |||| | |||  |      || || |   |  |||  |   ||| | || ||  | || |  | || |   ||  | |       
TTGCTACAATAGCATCTGCTGATGAAGCTGAGCATGGCTTGGCAGCCCCAGATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagt-----caacagatcctcttcttttcacgaatctttattttatattgacatgagtgtttacaaatttgtgtaagccttatttatgaaatatggattggtg

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G032367_T01 (Zea mays), 5'ss of exon 3
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagtta-gcaa-ctatgttcagtcaaactagtccc
|||| |||| ||||| |||||||||||||||||||||  |||||   ||    ||||| ||||| |||   |||||| | || || ||||||||||| |||| |||   |||  |  ||  |||     |     | | |||    || |      |    ||| | || | | | || |  | || |   ||  | |    
TTGCTACAATAGCATCTGCTGATGAAGCTGAGCATGGTTTGGCAGCCCCAGATTATCCGTGGCCACATGCTGGCATCATGAGCTCTTATGATCATGCATCgtaagtc-aaccatagcttcttcttttcatgaagctttgtttcatatgatatggcgtgatgtttacaaattcatgtaagccttatttatgaaatatggatt-

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagttagcaactat-gttcagtcaaactagtccc---
|| | |||  ||||| ||||||||| ||||| |||||  |||   ||||    || || ||||||||| | ||||| ||||| |||||||| |||||||||||||| |   |   | | |||   ||| ||| | |||  ||   | ||   |   ||| |||| |  |   |     | | | |     ||  ||    |   
TTTCTACAGTAGCATCTGCTGATGAGGCTGAACATGGATTGGAGAGTCCAGAGTACCCTTGGCCTCATGATGGCATTCTTAGCTCATATGACCATGCTTCgtgagtattgtcaccactctct---catcttcttgtctggttaa-tagcatcattttatcattttcttatagatttttttttgcttttataagttaacgtcctt

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 2
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttgctcaacaat--atgatttgcgaagttagcaactatgttcagtcaaactagtccc-----------
|| | ||    |||| ||||||||| ||||| ||||| ||||  ||||||| ||| || ||||| ||| ||||||| || || |||||||| |||||||||||||| |    | ||  | |  | || |   | |  |    ||    | | | | |  |  ||| | ||| || |  |||   || | | |   | |               
TTTCTACTGTTGCATCTGCTGATGAGGCTGAACATGGTCTGGAGTGTCCTAACTACCCTTGGCCACATGAGGGCATTCTCAGCTCATATGACCATGCTTCgtgagtgt----tcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgc-tttactgacggttgatttgtaatgagcag

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 5'ss of exon 2
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagt---ttgacctgaaatttctctacattttcctttctatttttcttgctcaacaatatgatttgcgaagttagcaactatgttcagtcaaactagtccc--
||||||||| ||| | | | ||||| ||||| ||||||||||||||||| | ||||||||||||||| |  ||||| || ||||||||||| |||||||||| ||    ||       |  || ||||        | | ||      |  ||  | |  |   |||| |||  ||   |    |||||   |  |    ||   
TTGCAACAATAGCTTCTTCAGATGAGGCTGAACATGGCCTGGCATGTCCAAACTATCCATGGCCTCACAGCGGCATTCTCAGTTCATATGACCATGCTTCgtaagcagattacatcttatgttatctattacgcaatctatagaaaagtgtcttgataggac--tttgagaaactaaacatcg-gttcaa--aggccttcccttg

upper sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 3
TTGCAACAACAGCATTTGCTGATGAAGCTGAGCATGGCCTGGCATGTCCTAGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttgacctgaaatttctctacattttcctttctatttttcttg---ctca-acaatatgatttgcgaagttagcaactatgttcagtcaaactagtccc
||||||||| ||||| ||||||||| |||||||||||  | | |||| | | |||||| ||||||||    ||||| || ||||||||||| |||||||||||||| |    |||| ||    |  || || |     |||  || |    | || ||||  ||| |  | |    |  |  ||| |  | |  |  || ||  
TTGCAACAATAGCATCTGCTGATGAGGCTGAGCATGGATTAGAATGTGCAAACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtctattgaatttaagatcaatcttgcagagaattgatcctaagacacagacaacttgactctcaa--caaatatttatctcaaatttatataatc--

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|7588518|gb|AW704242.1|AW704242
EST:     AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTC                         GATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC
genomic: AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttga ... gaataagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC
EST: gi|8670252|gb|BE191359.1|BE191359
EST:     AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTC                         GATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC
genomic: AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttga ... gaataagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC
EST: gi|7478352|gb|AW666231.1|AW666231
EST:     AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTC                         GATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC
genomic: AGCTATCCATGGCCTCATAAGGGCATCCTTAGTTCATATGATCATGCTTCgtgagtttga ... gaataagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTC