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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG

Basic information

species Glycine max
transcript GLYMA06G15510.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 3
-----------------------------gtgaggatactatgaatcttgggatgcg-----tgttctttttt---------tggttttgcttgcatgctaaatgagtggttggttttctttgttgtg-----------------ttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
                              |  |  | || |     ||| |||| |     |||||||  |              |   ||       ||  ||||  |   ||  |  || |||                    |       ||     |||||||||||| |||||||| ||||| || |||||||| || ||||| |||||||| || ||||||||||| ||||||||  | |||  ||
gtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 3
gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgc-ttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtg-attctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
        |  |||| |  | | ||||  ||| | ||  || || |||     |     |   ||   |  |  || ||  ||   | |    | ||   |  ||| ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| ||||| |||||||||||||||||| | |||  ||
----attgaacatgacttgtcg-atgca-gttatgttgatgattatgcaccataattctaggtaggactaagaattgttacttacatggcacatttgtggttgcagCTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
gtgaggatactatgaatcttgggatgcgtgttctt-----tttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
      |      |||| |||       |||| |      ||  || || |||   ||| |||  | | |      | ||   | | |||     | |||| ||  ||| ||||| || |||||||||||||| || |||||||| || ||||| || ||||| ||||| |||||||| ||||||||| | |||  ||
------acttgtcgaatgttgatgattatgttgtcgaatgttgatgattatgcgc-cattctatgtcactaagaattgttacctat-gtggcacatttgtggttg-cagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G147450_T03 (Zea mays), 3'ss of exon 4
gtgaggatactatgaatcttgggatgcgtgttctt-----tttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
      |      |||| |||       |||| |      ||  || || |||   ||| |||  | | |      | ||   | | |||     | |||| ||  ||| ||||| || |||||||||||||| || |||||||| || ||||| || ||||| ||||| |||||||                     
------acttgtcgaatgttgatgattatgttgtcgaatgttgatgattatgcgc-cattctatgtcactaagaattgttacctat-gtggcacatttgtggttg-cagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTG---------------------

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: AT3G27740.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcat-gctaaatgagtggttggtttt--ctt------tgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
                         |  |||| | || || | |||  ||  ||  |   |    | |||| ||||  |||      | ||   || ||| |||  ||   ||||||||||||||||| || ||||||||||||||||| ||||||||||| |||||||| ||||| ||||| || |||||  | |||  ||
-------------------------gtatgttttgttctttgatttcattatatcacctcaaagattgttgattttagcttactgaatcttagattttgtttgtttttggaagGTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 2
gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
 ||    | ||      |   |      ||  ||  ||  ||  ||| |    || | | |||    |   |     ||| | ||| || |||   |||  ||| ||||| |||||| | ||||| |||||||||||||| ||||| ||  | |||||||||||||||||||| ||||| ||  |||||||||
-tggctctgcttatctgcaaagttaaaatgacctgattgaggagttgatattttgttca-tgatccatatatggaagttgatatgtggt-tgtcatattg-cagATATCAGGAAATTCTTACAGACCCTAGTTATGCTGGTCAGTTCGTCTTAATGACAAATCCACATATTGGCAACACGGGGGTAAATTTTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19894 (Selaginella moellendorffii), 3'ss of exon 2
gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
                                   | | |  || |  || |||  |  || |            ||||   ||||||  |||    ||| ||||||||| || ||| | || ||||| ||||||||||||||||| ||| | |||||  | || || ||||||||||||||| | |||||||
----------------------------------gtatgtatttctctttccattttggatcac------aaccactttaaagtgttgcatgtcc--ttcccagGTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAACCGCACATTGGGAACACTGGCGTCAATTTTG

upper sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07419 (Selaginella moellendorffii), 3'ss of exon 2
gtgaggatactatgaatcttgggatgcgtgttctttttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
                                   | | |  || |  || |||  |  || |            ||||   ||||||  |||    ||| ||||||||| || ||| | || ||||| ||||||||||||||||| ||| | |||||  | || || ||||||||||||||| | |||||||
----------------------------------gtatgtatttctctttccattttggatcac------aaccactttaaagtgttgcatgtcc--ttcccagGTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAGCCGCACATTGGGAACACTGGCGTCAATTTTG

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|151406343|gb|EV276158.1|EV276158
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|213614361|gb|DB966963.1|DB966963
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|298181786|gb|HO025961.1|HO025961
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|19271025|gb|BM887281.1|BM887281
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16284806|gb|BI946280.1|BI946280
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|298173478|gb|HO016814.1|HO016814
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16996720|gb|BM086092.1|BM086092
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16348135|gb|BI973730.1|BI973730
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|15589927|gb|BI674543.1|BI674543
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|209727965|gb|BW666685.1|BW666685
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16283929|gb|BI945815.1|BI945815
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGAACCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|19347243|gb|BM892123.1|BM892123
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16283309|gb|BI945483.1|BI945483
EST:     GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatac ... tgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG
    tgctaaa  putative branch site (score: 2)
                                                ttctc  putative PPT
                      ttttcttt  TA-rich tract