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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatgcccatgaaattggatggtactcatcatagcttctctgctgtgttttagtaattcatagcctcccaactgattctgttatattccttatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG

Basic information

species Glycine max
transcript GLYMA02G16010.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G16010.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g06740.1 (Oryza sativa), 3'ss of exon 6
-acatgcccatgaaattggatggtactcatcatagcttctctgctgtgttttagtaattcatagcctcccaactgattctgttatattccttatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
 |  |    ||   | ||  |   | | |   |   ||   |  ||  | ||  |  | ||| |  | |    ||||| ||  ||    |  ||     |||||||| || ||||| || || || |||||||| || |||||||||||||||||||| || |||
catttcagtatttcactgtttatcagttaaattttatttggttttggttattgttgttccattggatgctccttgattgtga-attgcacaaatttgacagAGCTGTACCATCTGCCGTTTTCTCCCAACCACCCATCGGACAAGTTGGTCTTACTGAAGAGCAG

upper sequence: GLYMA02G16010.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G172322_T02 (Zea mays), 3'ss of exon 6
--acatgcccatgaaattggatggtactcatcatagcttctctgctgtgttttagtaattca--tagcctcccaactgat-tctgttatattccttatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
     || | ||    |  ||   |   |||     | |      | ||  | |  || |||  |  || | |  |   | |   ||| | |  ||  ||    ||||| | ||||||||||| || || ||||||||||| ||||||||||||||||||||||| |||
gattgtgtctatcccgtccgacactggccatggggccatgctatttatggat-atcaactcaactgaccactcttccattgtgaattacaatttttggca----gAGCTATACCTTCTGCTGTGTTCTCCCAACCACCAATAGGACAAGTTGGTCTTACTGAGGAGCAG

upper sequence: GLYMA02G16010.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0141g00390.t01 (Vitis vinifera), 3'ss of exon 6
acatgcccatgaaattggatggtactcatcatagcttctctgctgt--gttttagt--aattcatagcctcccaactgattctgttatat-tccttatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
     |  |  |    |  |  |||   |   || ||   || |    |  | |||   ||   ||     | | |||| |   || | | | ||||| | | |||||||| || |||||||| ||||| || ||||| ||||||||||||||||||||||| ||||||
---ccctgagaaggaagtctaatacaagtttgagtttaaatggtaaaaggctaagtttgatctgta-ttagctacctgactagattgtttcttcttatgagc-agAGCTGTACCATCTGCTGTGTTTTCCCAGCCACCTATTGGACAAGTTGGTCTTACTGAAGAACAG

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|27424963|gb|CA936483.1|CA936483
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|208088305|gb|GD889473.1|GD889473
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192311298|gb|FK003769.1|FK003769
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|10237572|gb|BE806460.1|BE806460
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|208312884|gb|GE111702.1|GE111702
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192318300|gb|FK005804.1|FK005804
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|19346748|gb|BM891628.1|BM891628
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|192314162|gb|FK011534.1|FK011534
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCCGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|37995669|gb|CF807258.1|CF807258
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|14258668|gb|BG881576.1|BG881576
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|7924612|gb|AW830638.1|AW830638
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|16997020|gb|BM086392.1|BM086392
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|8283020|gb|BE020581.1|BE020581
EST:     GCATTAGTAAAAACACTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
EST: gi|254323695|gb|GR836034.1|GR836034
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCA
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCA
EST: gi|192318301|gb|FK005805.1|FK005805
EST:     GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAG                         AGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT
genomic: GCATTAGTAAAAACGCTGTTTCAGGATAACCCAACAAAACCTGATTATAGgtattatata ... tatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttagtaattcatagcctcccaactgattctgttatattccttatcatctagAGCTGTTCCTTCTGCTGTATTTTCTCAACCACCAATTGGACAAGTTGGTCTTACTGAGGAACAG
                        aactgat  putative branch site (score: 3)
                                        ttccttatc  putative PPT
        taattcata  TA-rich tract