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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaatttttgctgtgtcttttcatatatttaatcatgttcttaatctaatgcttattattttcaatgatatttgggatattgaaattcaacatattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGATCAGGGATTAACAATTGGTTGGTTGCATTTGAG

Basic information

species Glycine max
transcript GLYMA09G35050.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G35050.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G19420.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggaatttttgctgtgtcttttcatatatttaatcatgttcttaatctaatgc-ttattattttcaatgatatttgggatattgaaattcaacatattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGATCAGGGATTAACAATTGGTTGGTTGCATTTGAG
    |   | ||   | ||| | |  || |||| | |  ||||| || | || |   || || | ||   | ||  ||    |||      ||      || |||||||||||| ||||| |||||||||||||||||||| ||||| || | |||| | || || || | ||||||| |     |||||
--gtgagttattaattctgtttatatatttattcattattgttccta-tatagtatatttttgtgtttttttattcttcatctatg-----tcttttggttttgcagTTTGTTTAGATGGAAGTCCACCAGCTTATCATTTGGATAGAGGTTCTGGAACTGGAATCAATAGTTGGTTGATACAGCTTGAG

upper sequence: GLYMA09G35050.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0087g00400.t01 (Vitis vinifera), 3'ss of exon 2
gtaaggaatttttgctgtgtcttttcatatatttaa--tcatgttcttaatctaatgctt-attattttcaatgatatttgggatattgaaattcaacatattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGATCAGGGATTAACAATTGGTTGGTTGCATTTGAG
|| |  ||  ||    |  |       | |    ||  |  ||||| ||||||  || || |||  ||   ||| | | ||  |  | || |||   | |||||||||||||| |||||||| || ||||| ||||| ||  | |||| |||||||||  |||||||||||||||||||||||    |||||
gtgaaaaaccttgttagaattcgggttttttcccaaatttttgttcataatctgttgtttgattgattcttatg-tgtgtgaaaattcgacatt---cttattatgcagTTTGCTTGGATGGTAGCCCACCTGCTTACCACATGGATAAGGGATTTGGTGCAGGGATTAACAATTGGTTGGTTCATATTGAG
















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|213597073|gb|DB968168.1|DB968168
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
EST: gi|18733683|gb|BM527753.1|BM527753
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
EST: gi|21888360|gb|BQ741573.1|BQ741573
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
EST: gi|9986444|gb|BE660552.1|BE660552
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
EST: gi|213614158|gb|DB964902.1|DB964902
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
EST: gi|15664114|gb|BI701485.1|BI701485
EST:     TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTG                         TTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT
genomic: TTCTTATGTGCCAATCACTATTGTTCAGAACGCGGTAGCAAAAGGAGCTGgtaaggaatt ... tattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgcttattattttcaatgatatttgggatattgaaattcaacatattatgcagTTTGTTTGGATGGGAGTCCACCAGCTTATCATTTTGATAGGGGATTTGGATCAGGGATTAACAATTGGTTGGTTGCATTTGAG
 atctaat  putative branch site (score: 3)
     ttattattttcaatga  TA-rich tract