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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgatatcttgcaatgttatgtcattaatttgataaatttaacatcctgatcaattgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT

Basic information

species Glycine max
transcript GLYMA03G36550.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g27230.3 (Oryza sativa), 3'ss of exon 11
--------------------------------------------gtgtgatatcttgcaatgttatgtcattaatttgataaatttaacatcctgat-caattgtttatga--agtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                             | |  || |||        || |  | |   | | | |  ||   || |||  || ||  | |||        |  |||| || ||| ||||||||||||||   |||||||| |||||||| || ||||||||||||||||| || |||||||| || |||||||||||||||||||| || ||||||||
gtcagttcctggaccagtttatatctgtatgctttgatattataattttgtagcttcagtaaacatcttttaaggattacacagctagtgtcatgaaacatttaatgatggcccacacttgctttcgtattt-cagCGGATTCATTGTCAGTGGAGTCGTTGTTGGAACTTTTGGATGAGGAAAGTTTAAGAAAAGACACGGCCCTTCCTTCTCCTGAATGGTCTTCGGATCATAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g07080.1 (Oryza sativa), 3'ss of exon 11
-------gtgtga-tatcttgcaatgtta--tgtcattaatttgataaatttaacatcctgatcaattgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
       |||  | | | ||| |||| |   |||  |   ||    ||  |  | ||  || |  |||     |    |  ||  ||   |   |||||||||||| ||    ||||| || ||| |||| ||  |||||||||| || ||  |||||||||| || |||||||| ||||||||||| || ||||||||
gtttgtggtgaaactttgttgaaatgctgcctgtggtgtgttctggaatatgcaaatattgctagatttacctttgcattgtattttccat---ttcagCGGATTCGTTATCAGTGGAATCGTTGCTGGAACTTCTGGATGAGGATAGCTTACGGAAAGACACTGCGCTTCCTTCACCTGAATGGTCATCAGATCATAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G124051_T01 (Zea mays), 3'ss of exon 11
-----------------------------------------------------------------------------------------gtgtgatatcttgcaatgttatgtc-attaatttgata-aatttaacatcctgatca-attgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                                                                          | |    | | |    | ||| ||  || || ||  | || |  | ||  || | | ||||| | | |    ||    | |    |||||||||||||||||  ||| |||||||| |||||||| ||||||||||| || ||||| |||||||| || |||||||||||||||||||| || ||||||||
gttagtgcttaaattcttggactggttcaagcgcttgctctatctcttccctttactttggttcaagcgcttggccgcttgcgctatctcttttccttttagtttggctatctctgttgatctggaataagtagatattgtgttaacattgtctttta--caatgtgctcttctatttcagCGGATTCATTGACTGTAGAGTCATTATTGGAGCTGTTGGATGAGGATAGCTTGAGAAAAGACACGGCTCTTCCTTCTCCTGAATGGTCATCGGATCATAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G043509_T01 (Zea mays), 3'ss of exon 10
-gtgtgatatcttgcaatgttatgtcattaatttg--ataa-atttaacatcctgatca-----attgtttatgaagtgataccttttgtgtt--ttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
  |||| |  |      |||     ||||  | ||  |||| ||| ||    || ||       ||| |||    | |||     |||||  |  ||||||||| || |||   ||||| ||||| ||||| || ||||||||||||||||| || ||||||||||| ||||| ||||||| |||||| || ||||| ||
tctgtgtttgcagcttctgtatctccatttttctggaataagattaaaggcactaattgtgcttattcttttgataatgaccatgtttgttctccttcagCGGACTCCTTGACAGTGGATTCATTATTGGAACTTTTGGATGAGGAAAGTTTAAGAAAAGACACAGCTCTTCCATCTCCTGGATGGTCATCAGATCACAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G118467_T01 (Zea mays), 3'ss of exon 10
-----------------------------------------gtgtgatatcttgcaatgttatgtcattaatttgataaatttaacatcctgatcaattgttt-atga-agtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                          |   || | |||||   |      ||| ||||        ||| ||  || | | |  ||| ||||  | |||   | || |  |||||||||| ||||||   ||||| ||||| ||||| || |||||||| ||||| || || ||||||||||| || || || ||||||||||| || ||||| ||
gttggtgcatggagactcacccacgcacacagtagactttaattctatgt-ttgcagcttctgtatattcattttcctctaataagattgtgcttattcttttgatgatggcgatgtttgttct-ctttcagCGGACTCATTGACAGTGGATTCATTATTGGAACTTTTGGATGAAGAAAGCTTAAGAAAAGACACAGCTCTCCCATCCCCTGAATGGTCATCAGATCACAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------------gtgtgatatcttgcaatgttatgtcattaat-ttgataaatt-taacatcctgatcaattg---tttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                   |   |||| ||        ||||  || ||  |  ||  || |  | |  |      ||    ||    ||   |||   |||||| || |||| || || ||    ||||| ||||||||||| || ||||||||||| || ||||| ||||||||||||||||||||||| || |||||||||||||||||
gtaatctttttcctacatgtcggtttgcatctttttcctatattttatttacacatgtgcttcatacttgtagtttgtgccgttattgatgtttaggattctctaataaataagatttgtggttccagCCGACTCTTTAACGGTGGAATCATTGTTGGAACTCTTGGATGAGGATAGCTTGAGAAAAGACACAGCACTTCCTTCTCCGGAGTGGTCCTCTGATCATAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ35408 (Selaginella moellendorffii), 3'ss of exon 10
gtgtgatatcttgcaatgttatgtcattaatttgataaatttaacatcctgatcaattgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
           || | ||||  | | |      ||| ||   |    |   | |||         | ||  |   || | ||||| ||||||||||| | || ||||| ||| |  | ||||| ||||| ||||| || ||| ||||||||||||| || |||||||| || ||||| || ||||||||
----------gtg-agtgtttggccttcctggagatgaagcgattgacacaagcaa--------aacgtttttttttctctgtttgcagCGGATTCAATAGTGGTGGATTCACTACTCGAGCTTTTGGACGAGGAGAGCTTGCGGAAAGACACAGCGCTCCCTTCTCCAGAGTGGTCGTCAGATCATAT

upper sequence: GLYMA03G36550.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ17358 (Selaginella moellendorffii), 3'ss of exon 10
gtgtgatatcttgcaatgttatgtcattaatttgataaatttaacatcctgatcaattgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
                                |||    ||  |      |||  |         ||  | |   || | ||||| ||||||||||| | || ||||| ||| |  | ||||| ||||| ||||| || ||| ||||||||||||| || |||||||| || ||||| || ||||||||
-------------------------------gtgagtgtttagatgaagcgattgac-acaagcaaaacgtttttttctctgtttgcagCGGATTCAATAGTGGTGGATTCACTACTCGAGCTTTTGGACGAGGAGAGCTTGCGGAAAGACACAGCGCTCCCTTCTCCAGAGTGGTCGTCAGATCATAT

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|12774793|gb|BG239741.1|BG239741
EST:     AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGGTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|6455833|gb|AW186516.1|AW186516
EST:     AAATGTAACGAGAGATTNTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTN
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|213617210|gb|DB971301.1|DB971301
EST:     AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|193484052|gb|FK452427.1|FK452427
EST:     AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|13789112|gb|BG651703.1|BG651703
EST:     AAATGTAACTAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|209724923|gb|BW669613.1|BW669613
EST:     AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|20813093|gb|BQ297563.1|BQ297563
EST:     AAATGTAACTAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAG                         CGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
genomic: AAATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTT
EST: gi|193378821|gb|FK345162.1|FK345162
EST:     AATGTAACGAGAGATTTTATTGGCTCTCTTGATTACATAATTTTACACAG                         CGGATTCATTGGTTAGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGT
genomic: AATGTAACGAGAGATTTTATTGGCTCTCTTGATTACAT-ATTTTACACAGgtgtgatatc ... gtgttttcagCGGATTCATTGGTT-GTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatttaacatcctgatcaattgtttatgaagtgataccttttgtgttttcagCGGATTCATTGGTTGTGGAGTCATTGTTGGAGCTATTGGATGAGGAAAGTTTGAGGAAAGACACAGCACTTCCTTCTCCTGAATGGTCCTCTGATCATAT
            tcctgat  putative branch site (score: 3)
                                       ccttttgtgttttc  putative PPT
                    aattgtttat  TA-rich tract