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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgtgtgaatgtttgttgctacttaacttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG

Basic information

species Glycine max
transcript GLYMA02G17430.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 3'ss of exon 3
gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgtgtgaatgtttgttgctacttaacttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
    |||  | | |   ||  | |   | ||||   |  ||  |  | |  ||   |  ||   || |   ||||  ||  || |    ||    ||| || | |||||||| ||||  |||||| | ||||| || || ||||| ||||| || ||||| ||||| ||||||||||||||||||
----cgaattgtgtgttctcttttgggt-catttggttccaattggtttgatcgttta-gtttgtgatgaatgctgtttc-ctcattgtttatggttgtcattgcagGATGGTGATAAGTTTTGGAGGATGCCAGAATGTTACATCCGTGGGAACACCATCAAGTATCTTCGGGTTCCTGATGAG

upper sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G095114_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------------gtaacgatcttttttcactgctctccctgcattcaatctcagat--attgtcttctcatgtgtgaatgtttgttgctacttaacttacaa------cttgaaat---tggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
                                               | ||  |  ||  || | |||  |   ||  ||  |  | |     || ||    | ||| |  |    || || ||   |  | |  |        ||  |||   ||| | | |||||||| || |  |||||| | ||||| ||||| ||||||||||| || ||||||||||| ||||| ||||||||||||
gtgaaaaatctggtgcccttgattcccattgtgataggttcttgttagcaa-aagattagttaagtgcattgtttgattttgaggtgaatctgatagtaacattatggggtaccagttatttctgtctttcctgtagtaaaggtttataatggctggaattgcagGATGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGTGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G038606_T02 (Zea mays), 3'ss of exon 3
gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcat-gtgtgaatgtttgttgctact-taacttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
     | |     ||||      |  |    |    |||||| |||  |  |||  | |  ||   ||||  ||    | |   |||  |        | | | | ||||| || || |  |||||| | ||||| ||||| |||||||| || || ||||||||||| ||||| ||||||||||||
----tggttgaaattcaa-atagtaacaatgtggggtctcagttatcctgctctattagcttgtgagtttcctgtagttatggtttatgat----ggctcgaattgcagGACGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 3'ss of exon 5
gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgtgtgaatgtttgttgctacttaacttacaacttgaaattggc--aattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
||||  | || |||      || | | ||  |    | |   |  |  | ||  | |       | ||  |||||  | || || ||  ||  |   |    |||  ||||||||||||| |||||| | ||||||||||||||||| ||||| ||||| ||||| || ||||| ||||||||||||
gtaatcaactctttaattgactgttcttgtttgttgttt---acttcttatttaccttgacagttcttgtttgctcttcaaatt-catgtttcatccgatttaatgtagGATGGAGATAGGTTTTGGAGAATGCCTGAGTGCTACATCCGTGGGAATACAATTAAATATCTTCGAGTTCCTGATGAG

upper sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgt------gtgaatgtttgttgctactta-acttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
|||  |   || ||||| |    |   |    |   |||   || |  | || | |||        |||   | |  ||  | | |   | |||| | | ||||   |||  ||||||||||||| |||||| | ||||| || |||||||||||||| ||||| |||||||| ||  | || ||||| |||
gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaa-tgggaattaa-aatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG

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|7639290|gb|AW733616.1|AW733616
EST:     GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAA                         GATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC
genomic: GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAAgtaacgatct ... ggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC
EST: gi|254324586|gb|GR834011.1|GR834011
EST:     GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAA                         GATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC
genomic: GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAAgtaacgatct ... ggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC
EST: gi|298174084|gb|HO017420.1|HO017420
EST:     GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAA                         GATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC
genomic: GTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAAgtaacgatct ... ggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatgtgtgaatgtttgttgctacttaacttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG
                           aacttac  putative branch site (score: 2)
                         ttaactta  TA-rich tract