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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA

Basic information

species Glycine max
transcript GLYMA05G02190.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaa-ttatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                         ||  || |   | |  ||| | || | |  | |  | |||| |   | ||||    ||  |||  | |   ||   || ||| | ||||||| ||||||| |||||||||||||| || ||||| ||||| |||||| | ||||| ||||| || || |||||||| |||||||| || ||||||||||
------------------------gtgtttgcagtaaac--tttcagaattttactgaggtcatgttggcagtattt----gcactaaaatga---tcacttgattcat-acagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                      | |   |       | |  ||||  |||       || | | |  |    ||||  ||  || |   ||||||            |   ||||| ||||||| |||||||||||||| || ||||| ||||| || ||| | ||||||||||| ||||| ||||| || |||||||| || ||| ||||||
---------------------gtgtcatagagctccatcttttttgaaaaaa-----aaatctttaatccatatttatta-ttaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 8
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                      | |   |       |||  |||| ||||| ||||||||  |    ||| |  ||     ||| |  |  || ||  | |          ||||| ||||||| ||||| |||||||| || ||||| ||||| || ||| | ||||||||||| ||||| |||||||| |||||||| || ||| ||||||
---------------------gtgtcttagagctccagc--ttttttaaatgtgtttaatccttatttattatgttaaacactaaagtgacaacttggtat-------tgtagGGTTTAGAAGTTATTGAGGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAATCTATCATACACTCTATGGTTGAAA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctata-aggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                             | || |      | |  |||   |      | || | | |   |  |   | | |   || | | ||  |  |  ||    ||||||||| || || |||||||| ||||| |||||||||||||| || ||  |||| ||||||||||||||||| |||   ||||||||||| ||||||||||
----------------------------gttaagattattttctcctaaggttaaactctgattttgaaaatacctttgatcaaggtagatgagttcttgattttttgaaacagGGTCTTGAGGTCATTGAAGCGCATTATTTGTTTGGAGCTGAGTATGACGATATAGAGATTGTCATTCATCCGCAAAGTATCATACATTCCATGATTGAAA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 8
gtttgcttctttttttatgtc---atattgaatgaaaagagccattttataaatctgtttaatta-tgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
|||||   |||||||  ||||   ||  |  || | | |  ||| | | | |||   | || | | | |||| ||| ||     || | ||    |  || || | ||| || ||||||| ||||||| ||||||||||| ||  ||||||| ||||| || ||| ||||||||||  | |||||||||||||| ||||||||||| ||| | ||||
gtttgtcccttttttggtgtctctattcttgattacatgcaccaatatgtgaatgaatctactcactatggtctgagtt-----gcaacaaat--accttgttttcctttttgacagGGTTTAGAAGTTATTGAAGCACACTATCTGTTTGGGGCTGAATATGATGATATTGAGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ07179 (Selaginella moellendorffii), 3'ss of exon 9
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                                                              |     |  | |||  ||  | |  | | || |         |  |  ||||| || || || |||||||| || || ||||||||||||||||| ||| | ||||| ||||| || ||||| ||||| || ||||| || ||||| || |
-------------------------------------------------------------gtaaaaaaacatttttatacttgtctgctgaactaacatcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCCATTATACACTCCATGATCGAGA

upper sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ09183 (Selaginella moellendorffii), 3'ss of exon 9
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
                                                              |     |  | |||  ||  | |  | | || |         |  |  ||||| || || || |||||||| || || ||||||||||||||||| ||| | ||||| ||||| || ||||| ||||| || ||||| || ||||| || |
-------------------------------------------------------------gtaaaaaaacatttttatacttgtctgctgaactaacatcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCGATTATACACTCCATGATCGAGA

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|254347803|gb|GR854052.1|GR854052
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|16281706|gb|BI944626.1|BI944626
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193522059|gb|FK482618.1|FK482618
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAAT
EST: gi|193710747|gb|FK641760.1|FK641760
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAAT
EST: gi|193677377|gb|FK615307.1|FK615307
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAAT
EST: gi|193398981|gb|FK363881.1|FK363881
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|254347804|gb|GR854053.1|GR854053
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTA-CCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|254343989|gb|GR857745.1|GR857745
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         G-TCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|17401027|gb|BM177809.1|BM177809
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193691933|gb|FK631016.1|FK631016
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAAT
EST: gi|193313606|gb|FK280457.1|FK280457
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCA
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTC-TAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCA
EST: gi|19271058|gb|BM887314.1|BM887314
EST:     TTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193410931|gb|FK378962.1|FK378962
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|15589848|gb|BI674464.1|BI674464
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|16278852|gb|BI943128.1|BI943128
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193518771|gb|FK472744.1|FK472744
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAAT
EST: gi|16277944|gb|BI942645.1|BI942645
EST:     GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: GGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193410047|gb|FK372912.1|FK372912
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193407724|gb|FK373100.1|FK373100
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
EST: gi|193401667|gb|FK366340.1|FK366340
EST:     TAACTGTGGACTCTGCTACCCTTTTTAATAAG                         GGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT
genomic: TAACTGTGGACTCTGCTACCCTTTTTAATAAGgtttgcttct ... ttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA
 gtttaat  putative branch site (score: 4)
                                   tttcttctgcttcttc  putative PPT
                        tataaggtaaattt  TA-rich tract