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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggttctgaaattggcgcttttcttgaaatatttgattcttcaactttattgactgacatgcctacattaaaaaatatgatttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC

Basic information

species Glycine max
transcript GLYMA08G39420.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G39420.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G60820.2 (Arabidopsis thaliana), 3'ss of exon 5
-----gtgaggttctgaaattggcgctttt--cttgaaatatttgattcttcaactttattgactgacatgcctacat-taaaaaatatgatttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC----
      |||  ||||  | || | ||||||  | |     |||  |    | || |  || |       ||| ||  | |      | ||    | | |||||| |    || ||  | || ||||| |||||||||||  |||| ||||||||||| |||||||| || ||||| ||||| |||||     
gtttgttgatattcttca-ttcgtgcttttggcgtttcgcattgtaaagataaaatgaatcgttctgt-tgcttatttgttcgtcttctgccaccatgtagGATTCAAACACGCCCCTTTCCGAAGCTGAAGCAGTTGACTTGGTTAAAACTGTTTTCGCATCTGCCACAGAGAGGGATATCTACACTGTAA

upper sequence: GLYMA08G39420.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G60820.1 (Arabidopsis thaliana), 3'ss of exon 5
-----gtgaggttctgaaattggcgctttt--cttgaaatatttgattcttcaactttattgactgacatgcctacat-taaaaaatatgatttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC
      |||  ||||  | || | ||||||  | |     |||  |    | || |  || |       ||| ||  | |      | ||    | | |||||| |    || ||  | || ||||| |||||||||||  |||| ||||||||||| |||||||| || ||||| ||||| ||||| 
gtttgttgatattcttca-ttcgtgcttttggcgtttcgcattgtaaagataaaatgaatcgttctgt-tgcttatttgttcgtcttctgccaccatgtagGATTCAAACACGCCCCTTTCCGAAGCTGAAGCAGTTGACTTGGTTAAAACTGTTTTCGCATCTGCCACAGAGAGGGATATCTACACT

upper sequence: GLYMA08G39420.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0048g00900.t01 (Vitis vinifera), 3'ss of exon 5
gtgaggttctgaaattggcgcttttcttgaaatatttgattcttcaactttattgactgacatgcctacattaaaaaatatgatttcttt-tagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC
||| | |  | ||  | |    ||| |||| | ||||| | |      |    |  |     ||||| |  |||||   |   |   | |  ||||||||||||||||  | |||||  |||||||||||||| | || |||||||| |||||||||||||||||||| ||||||||||| 
gtgtgttcttaaagcttgttgctttgttgatacatttgctccactggttaatcttccatgtgtgcctgctctaaaatccaaactacttgtgcagGATGCTGTTACTCCTCTCTCTGAGCCAGAAGCAGTTGATTTAGTGAAAACTGTCTTTGCATCTGCAACTGAGAGGGATATATACACT

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|193552196|gb|FK508953.1|FK508953
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCGCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|193643170|gb|FK590760.1|FK590760
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCGCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|213592591|gb|DB961851.1|DB961851
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|209712774|gb|BW681630.1|BW681630
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|213601629|gb|DB980886.1|DB980886
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|6963774|gb|AW432467.1|AW432467
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|6072538|gb|AW101925.1|AW101925
EST:     TTTTGATAACCAGGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TCTTGATAACCA-GCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|193687919|gb|FK634422.1|FK634422
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCGCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|209712773|gb|BW681629.1|BW681629
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|208163442|gb|GD959806.1|GD959806
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|10843502|gb|BF066791.1|BF066791
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCGCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|12773264|gb|BG238191.1|BG238191
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|209720176|gb|BW651178.1|BW651178
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|192321731|gb|FK013165.1|FK013165
EST:     TTCTTGATAACCAGCTGAAGTTTCCTAGCCCACTCCTGTTACCTGCCCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACT
EST: gi|193725323|gb|FK661885.1|FK661885
EST:     TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCGCAG                         GATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGAT
genomic: TTCTTGATAACCAGCTGAAGTCTCCTAGCCCACTCCTGTTACCTGCCCAGgtgaggttct ... tttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcttcaactttattgactgacatgcctacattaaaaaatatgatttcttttagGATGCTGTTACTCCATTGTCTGAAGCAGAAGCAGTTGATCTGGTCAAAACTGTTTTTGCATCTGCAACTGAGAGAGATATATACACC
                gactgac  putative branch site (score: 2)
                                             tttctttt  putative PPT
                            tacattaaaaaatatg  TA-rich tract