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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT

Basic information

species Glycine max
transcript GLYMA08G22140.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 16
gtaagtggatcaatggtt-tgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttact-cagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
    |||  |   || |  | |    | |  | | |||   ||  | | || |||   |    ||  | | ||  | |||||| ||||| |||||  ||||| | ||||||||||| |||||||||||||| |||||||| ||| | ||| | || ||||| ||| ||||||| || || 
--gtgtgttttcttgataatactgcctgcttattgtct-ggtgttgaattcttgaac-taacatatttttcttgttgcagTGTCATGGGGTACACATTACTTCTTAGTTTGATTGAGTACAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCA

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G095348_T01 (Zea mays), 3'ss of exon 16
-------gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
        |   |  | ||||| ||    |  ||   || ||||      | |     ||| ||   | |||  | || |  |||| | || || |||||  ||||| | ||||||||||| |||||||| ||||| |||||||| |||||||||   || ||||||||| || |||| || || 
gtgcgctttctctaaaacaatgtttcctttcttttgtaacatctgctgttaatttctgtgactaacatataa--gcttgatacagTATCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGAACATGCAAATGAAATTTTATCATCCATACCA

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
gtaagtggatcaatggtttgcattattcaaaatatctca-atgcagtaatcctga-ttatt-ttttaactgttttact-cagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|||||  |       |  | | |  |||  |   ||| | |||  ||  |  ||  ||||      || | ||||| | ||||||  |||| || ||  ||||  | ||||||||||| ||||| |||||||| |||||||| |||||||||   || |||   ||| ||||||| || || 
gtaagcagcatg-cagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G086015_T01 (Zea mays), 3'ss of exon 1
-------gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
        |      | ||||| ||    |  ||   |  ||||        ||||     | | |    ||  | ||    |||||| || || |||||  ||||| | ||||||||||| |||||||| ||||| |||||||| ||||||||    || ||  ||||| || |||| || || 
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatct------gttaatttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 16
-------gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
        |      | ||||| ||    |  ||   |  ||||        ||||     | | |    ||  | ||    |||||| || || |||||  ||||| | ||||||||||| |||||||| ||||| |||||||| ||||||||    || ||  ||||| || |||| || |||
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatct------gttaatttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G448913_T01 (Zea mays), 3'ss of exon 5
-------gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
        |      | ||||| ||    |  ||   |  ||||      | ||||     | | |    ||  | ||    |||||| || || |||||  ||||| | ||||||||||| |||||||| ||||| |||||||| ||||||||    || ||  ||||| || |||| || || 
gtatgttttctcgaaaacaatgcttcctttcctttgtagcatct------attaatttctctgactaacaaatagcttggtacagTGTCATTGGGTACACATTACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCA

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 16
gtaagtggatcaatggtttgcattattcaaaatatctca------atgcagtaatcctgattattttttaactgtttt-----actcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
||| ||   |  ||  | ||  |  || | | | | | |      || ||  | |    |  || |||    | || |     |  |||||| || ||||| || || ||  | ||  |||||||||||||||| ||||| ||||| || |||||||| || |||||| ||||| ||||  ||||||||
gtacgttcctttata-tatgtttatttgagactgttttatcttgcatacataatttgctaacatatttccctttttcttgggaatgcagTGTCATAGGATATACCCTGCTGCTTAGCCTGATTGAATACAAGACTCTTGTGATGCGAGGCGATTTGGATAGAGCCAATCAAATTTTACCTACAATTCCT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaagtggatcaatggtttgcattattcaaaatatctcaatgcagtaatcctgattattttttaactgttttact-cagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|||||  |||   |   |   || |||   || |      || |     |    || | | |  ||| | | | | ||||||||| ||||||||  ||||||||||||||||||| |||||||| ||||| |||||||| |||||||||  ||| |||||| |  |||| |||||||||
gtaagcagatgttttactgttatgattgctaacaatgttttgtaacttactgacttctgtgtccactttatgattacagTGTTATTGGATACACTTTACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtggatcaatggtttgcatt---attcaaaa-----tatctcaatgcagtaatcctgattatt-------ttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|| ||||||    |||     |     | |  |       | |   | |||    ||| | ||||||       ||||  || ||  |  |||||| |||||||||||| ||||| | ||||||||||| |||||||| ||||| |||||||||||  ||||| ||||||||||| || |||| |||||||| 
gtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcagTGTCATGGGATACACGTTACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCC

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtggatcaatggtttgcatt------attcaaaatatctcaatgcagtaatc---ctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|| || |       |   |||| |      ||   |    | |   |   |||||    || | | | |||    | | |||  ||||||||||||||| ||  ||||| | | ||||||||| |||||||||||||| |||||||| || ||  || | || | ||||||| |||| |  ||||||
gtgagggagcttgggagctgcacttctgcaatctgactgcttttgttcttgtaattgatctaaatttatttatgttatcttatgcagTGTTATGGGATATACCTTACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCT

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|151411223|gb|EV281034.1|EV281034
EST:     CTATTTGATGGACAAAGAATTCAA                         TGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGT
genomic: CTATTTGATGGACAAAGAATTCAAgtaagtggat ... ttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcaaaatatctcaatgcagtaatcctgattattttttaactgttttactcagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
                                    ttttaac  putative branch site (score: 2)
                                             ttttactc  putative PPT
                            tgattattttttaact  TA-rich tract