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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtggttggctttaccccgctttctgtgttccgactaatttagtattgcattatgtatatcatcctgtatttctcccgccaatggatgttgttctttagaaaaacttgctcaacaattttagactaaattattttcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG

Basic information

species Glycine max
transcript GLYMA06G06850.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 3'ss of exon 10
gtaagtgtggttggctttaccccgctttctgtgttccgactaatttagtattgcattatgtatatcatcctgtatttctcccgccaatggatgttgttctttagaaaaacttgctcaacaattttagactaaattattttcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG
                                       |   ||||||  |  |||  || ||   | |  ||         | | |  || ||| | |||      |  |||| |   |||| |         || |   |||||||||||| |||||||||||||||||||||||||| || || || || ||||| ||||||||||| || ||||||||||| || ||||| ||||||||||| |
--------------------------------------tcatgtttagtcgt-tattcagtgtaat-tgcaatagccagatgacaacttaatattgattttttttccgatgtgcttattcatttga---------atatctttatgcagCTTGATGCATGTGCACATCCTTTCTTTGATGAGCTGCGAGAGCCGAATGCACGCTTGCCAAACGGACGTCCATTTCCACCACTATTCAACTTCAAACACG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 3'ss of exon 10
gtaagtgtggttggctttaccccgctttctgtgttccgactaatttagtattgcattatgtatatcatcctgtatttctcccgccaatggatgttgttctttagaaaaacttgctcaacaattttagactaaattattttcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG
                                      | |  || |   ||    | |   |   |  | ||||     |       | ||| ||  | ||   |||    ||| | ||  ||| |  |  |||||      ||||||||||| |||||||||||| | ||||||||||| || || || || ||||| ||| ||||||||||||||||||| || ||||| || |||||||| || |
-------------------------------------aattgtttaaagcttatgctttagctggaaaacagtataatctctaaagcagcatgctggacattttcaaaga--gcttagca--tttgg--ttgattat------atgcagCTTGACGCATGTGCACATTCCTTCTTTGATGAGCTACGAGAGCCCAATGCACGCCTGCCAAATGGTCGTCCATTCCCTCCTCTGTTCAACTTCAAGCATG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagtgtggttggctttaccccgctttctgtgttccgactaatttagtattgcattatgtatatcatcctgtatttctcccgccaatggatgttgttctttagaaaaacttgctcaacaattttagactaaattattttcctatg---cagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG
                                                                       | |||  ||  |   | |  | ||     |   | || |   || ||   ||      ||  || ||| |   |    ||||| ||||| ||||||||||| ||||||||||||||  | ||||| || ||||| || |||||||| || || || || ||||| || ||||||||||| |
-------------------------------------------------------------------gtaagcattggtcttg---aggtttcttcagtctctaagaatccaactgaatccttactatatattttgtttcctcgtatttcagCTCGAAGCTTGTGCACATCCGTTCTTTGATGAACTCAGAGAACCAAACGCTCGTTTACCAAATGGACGGCCTTTCCCGCCTCTCTTCAACTTCAAACAAG

upper sequence: GLYMA06G06850.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtgtggttggctttaccccgctttctgtgttccgactaatttagtattgcattatgtatatcatcctgtatttctcccgccaatggatgttgttctttagaaaaacttgctcaacaattttagactaaattattttcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG
                                        || |||  |       || ||| || ||      |          |||  |  |||| | ||   |   | |  |  ||     ||  ||| ||| || || | ||||||| ||||||||||||||||||||||||||||| || || ||||| ||||| ||| ||||||||||||||||||| || ||||| || || || || ||||
----------------------------------------tagtttctttaaatcctaagta-attattagtagtactattttgaaatatacattgtccatttcca--tcctctttgac-----taagctatatttttgtcat-tgcagCTAGAAGCATGTGCACATCCTTTCTTTGATGAGCTCCGAGAACCCAATGCCCGCCTGCCAAATGGTCGTCCATTACCACCTCTCTTCAATTTTAAGCAGG

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|10236817|gb|BE805705.1|BE805705
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|6482526|gb|AW201783.1|AW201783
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATNCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|15815079|gb|BI787354.1|BI787354
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|193456694|gb|FK423524.1|FK423524
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTG
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTG
EST: gi|17022657|gb|BM093691.1|BM093691
EST:     CTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: CTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|193557800|gb|FK513639.1|FK513639
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATTCCTTTCTTTGATGAAC
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACAT-CCTTTCTTTGATGAAC
EST: gi|254320416|gb|GR826865.1|GR826865
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|7590646|gb|AW706394.1|AW706394
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
EST: gi|10843146|gb|BF066460.1|BF066460
EST:     ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCG                         CTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT
genomic: ATCTTGCATCCCGGCTTTTGCAATACTCCCCAAGTCTCCGGTGCACTGCGgtaagtgtgg ... tcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttctttagaaaaacttgctcaacaattttagactaaattattttcctatgcagCTTGAAGCATGTGCACATCCTTTCTTTGATGAACTTCGTGAACCTAATGCTCGCTTGCCAAATGGTCGTCCATTTCCCCCTCTATTTAACTTCAAACAGG
                                gactaaa  putative branch site (score: 2)
                                       ttattttcct  CT-rich tract
                      aacaattttagactaa  TA-rich tract