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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA

Basic information

species Glycine max
transcript GLYMA17G34690.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g51410.2 (Oryza sativa), 3'ss of exon 10
gtaagtccattccatg-attgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
     ||||    | | |||   |   ||   || | | |||    | | |||  | || | | | |  |      |   ||| |||  |||||||| || ||||| || ||||||||||||||  | |||||||| || || |||||||| || |||||||||||||| || |||||||| ||||
--gtatccaacataggtattttggcatttggacattgagttatgcatttccat--tttgttaattggatattggaactttttgcagACGACTGCTGGTATAGAGCCAGAGGATGTTGCAAAGCGTTTGATGGACTATGGATTCCATGCACCTACTATGTCATGGCCTGTTCCAGGCACACTTATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os06g40940.1 (Oryza sativa), 3'ss of exon 11
gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctatt----cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
    ||   |  |||  ||    | |   ||  |     | || || | ||| |     ||  |  |  | |||     ||  ||| |||  |||||||| || ||||| || ||||||||||||||  | |||||||| || || |||||||| || |||||||||||||| || |||||||| ||||
----gtatctatcatagttattttggcatttggacc---ttgagttatgcatttcaattttcttaattggatatcgcaaccttttgcagACGACTGCTGGTATAGAGCCAGAGGATGTTGCAAAGCGTTTGATGGACTATGGATTCCATGCACCTACTATGTCATGGCCTGTTCCAGGCACACTTATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G104310_T02 (Zea mays), 3'ss of exon 9
gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
|||  |  ||   |   |     | |   || ||  |   |     ||   |   ||| |  | |||||  |  ||       |||  |||||||| || ||||| || ||||| ||||||||| | ||||||||||| || || ||||| || |||||||||||||| ||||||||||| ||||
gtacttttatctgac--tcatgttagcaattgaaccatgcattgcggtctctaacctgctc-cctgtaactttgtc-------agACGACTGCTGGTATAGAGCCGGAGGATGTGGCAAAGCGCTTGATGGACTACGGGTTCCACGCACCGACCATGTCATGGCCTGTTCCTGGCACACTTATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G33010.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtccattccatga-ttgcagttgttcttcaattaattagaattgttcatgtt-ctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
||| |   ||    |||  || | ||    |  | ||  || |  |  | ||| |  ||||    ||  ||  |       |||||||| ||||||||||| || || || ||||| || || || || |||||||| || || |||| ||| |||||||| |||||||| ||||| || || ||||
gtatgaaaatgttgtgaactgaaattaaagt--agttgttttgggt-atgcatatcactgaccgattcaaatatgaat---ttgtagAACACTGCTGGAATAGAACCAGAGGATGTGGCGAAACGGCTAATGGACTATGGATTCCATGGACCCACAATGTCTTGGCCTGTCCCTGGAACTCTTATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv04s0008g01300.t01 (Vitis vinifera), 3'ss of exon 11
gtaagtcc-attccatgattgc---agttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
|||  |   | |  ||  | ||   | ||  || |  |||  | | | |||||  |  | ||| ||     |||  | |     || ||||||||||||| || |||||||||||| |||| ||||| || |||||||| || ||||||| ||| |||||||||||||| |||||||| ||||||||||
gtagtttttactaaatattcgctataattcatcctttatttgtcatatttgttatttatttgactaaccacaagtcaatattgctgcagAATACTGCTGGGATAGAGCCTGAAGATATTGCTAAGCGTCTTATGGACTATGGATTTCATGGACCGACAATGTCATGGCCAGTGCCTGGTACACTCATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv11s0016g02280.t01 (Vitis vinifera), 3'ss of exon 12
gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgt-tctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
        | | ||||    || || |||||  |||  ||    | |   |    || |  ||   |      ||| | |||| |||||||||||||||| ||||||||||||||||| || || |||||||| || || || ||||  ||||||||||| ||||| || || || ||||||||||
------gtacttcatg-ccacactt-ttcttatattgcttgctgtaggcaaaaaatcaggctaacggaggatgattactattgcagAATACTGCTGGAATAGAGCCTGAAGATGTTGCTAAACGTCTCATGGATTATGGGTTCCATGGGCCAACAATGTCCTGGCCAGTACCAGGAACACTCATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S15_500V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------gtaagtccattccatgattgcagttgttcttcaattaattagaatt-----gttcatgtt--ctga----ttacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
                           || |    |     ||  || |  ||       |  |||  ||  |     ||||||  |  ||||     |  || |      |    ||   || | ||||||||||| ||| | || ||||| || |||||||| |||||||||||||  ||||| ||||| ||||| ||||||||| | ||||| |||||||
gtactgaatgccgagaagccctgagtagtgaagtgaaattttgcctggatatgaaacatgaggaatgggaggtttagggttcatagttactgagctgctgattatgttgcgtgtgtatcacagGAAACTGCTGGAATCGAGGCAGAGGATGTGGCGAAGCGCCTGATGGACTACGGTTACCATGCGCCAACCATGTCGTGGCCTGTGTCCGGCACGCTCATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S276_86V6.1 (Physcomitrella patens), 3'ss of exon 9
--------------------------------gtaagtccattccatgattgcagttgttcttcaattaattag-aattgttcatgttctgattacttgtaagctattcccatt----gtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
                                ||  |  | ||   |   | |||    | |  |   |  |||  |||||| |     || |||||     ||| || | |||      || | || || ||||||||| |||| ||||| || |||||  | ||||||||||||| |||||| ||||| ||||||||||||||| |||| || || ||||
gtaacgtacctcgaaatgccctagctaatcgcgttggaaccttttctcgatacagaaaatgtgaaggaatatagtgattgttgagagagtgtttactgaattgctgtttcgattcatgacagGACACGGCAGGAATTGAGGCTGAGGATGTGGCTAAGCGTTTGATGGACTACGGTTATCATGCTCCAACCATGTCATGGCCTGTGTCTGGAACGCTTATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ19263 (Selaginella moellendorffii), 3'ss of exon 11
gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
                        ||   ||| |||  |   |||||   | |    | |||  |||  |  ||| ||  |  ||   || ||    || ||||||||||| ||||||||||| || || |||||||| |||||||| ||||| ||||| ||||| || | ||| ||| | ||||
-----------------------gtgacgttccattgct---aattg---aagacggggttaactgttggtgattacctgtacagGCGACAGCAAATATAGAGCCTGAAGACGTTGCAAAGCGTCTAATCGACTACGGCTTTCATGCGCCAACTATGTCTTGGCCAGTTCATGGGACATTGATGA

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ10519 (Selaginella moellendorffii), 3'ss of exon 11
gtaagtccattccatgattgcagttgttcttcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
                        ||   ||| |||  |   |||||   | ||   | |||  |||  |  ||| ||  |  ||   || ||    || ||||||||||| |||||||| || || || |||||||| |||||||| ||||| ||||| ||||| || | ||| ||| | ||||
-----------------------gtgacgttccattgct---aattg---aagtcggggttaactgttggtgattacctgtacagGCGACAGCAAATATAGAGCCTGAAGACGTTGCAAAACGTCTAATCGACTACGGCTTTCATGCGCCAACTATGTCTTGGCCAGTTCATGGGACATTGATGA

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|20448765|gb|BQ252889.1|BQ252889
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGAT
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGAT
EST: gi|26058323|gb|CA801237.1|CA801237
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
EST: gi|209717715|gb|BW671533.1|BW671533
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGA
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGA
EST: gi|20075344|gb|BQ094127.1|BQ094127
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACTTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
EST: gi|120493515|gb|EH221682.1|EH221682
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
EST: gi|13480387|gb|BG509730.1|BG509730
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
EST: gi|20812005|gb|BQ296483.1|BQ296483
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACTTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
EST: gi|192315105|gb|FK009929.1|FK009929
EST:     TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAG                         AATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC
genomic: TCAATGGAACAGTTGCTCATGAATTCATCATTGACCTGAGAGGCTTTAAGgtaagtccat ... cccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaattaattagaattgttcatgttctgattacttgtaagctattcccattgtagAATACTGCTGGAATTGAGCCTGAAGATGTTGCAAAGCGCCTCATGGACTACGGTTTTCATGCACCAACAATGTCATGGCCTGTGCCTGGCACACTCATGA
                       ttctgat  putative branch site (score: 3)
                                        ctattccc  putative PPT
     taattagaattgtt  TA-rich tract