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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgattggaagttcccttcatttttaatctgttataattgaggatgcaagttacatggcgctaatttatttttttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA

Basic information

species Glycine max
transcript GLYMA19G45140.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g54340.1 (Oryza sativa), 3'ss of exon 6
-----gtaagtgattggaagttcccttcattttt------aatctgtt-ataattgaggatgcaagttacatggcgcta-atttatttttttatattttatctgcta-----------------gGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
      |||    ||   |||||   ||  || |      ||  || | ||  ||| | || || | ||  | |   |  | |||||||  ||| |  | | |||||                 ||||||||||||||||||||| ||||||||||| || || ||||| || ||||||||||||||||| || ||||||||||| || || || ||||||||||
gtatactaatcttttttcagttcatatcccttgtcgtgcaaacttgctcatccttgtgcat-caggctagttagttttggacttattttgctatttactgtttgctaattattgtttgttcatagGTTGTTGAGCTTCCCATGCTTCACCCAGAGAAGTTTGTCAAGCTTGGTATTGATCCTCCAAAGGGGGTCCTTTGCTATGGCCCTCCTGGAACTGGCAAAA

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 6
gtaagtgattggaagttcccttcatttttaatctgttata-attg-aggat-gcaagttacatggc--gctaatttatttt---tttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
||| |||||      ||   |    || | | |||  | | | || |  || |  ||||||  | |  | |   ||| | |    || ||  || | ||| |||||||||| ||||| ||||| |||||||| || || || ||||| || |||||||||||||| || || ||||||||||| ||||| || |||||||| |
gtatgtgatcc----ttttttcttcttgtgagctggcacatactgcatcatagttagttacgggactagtttggttactctgtgcttgtaccttttttgc-agGTTGTTGAACTTCCTATGCTTCACCCAGAAAAGTTTGTCAAGCTTGGTATTGATCCTCCAAAAGGCGTCCTTTGCTATGGCCCACCTGGCACTGGCAAGA

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G110185_T04 (Zea mays), 3'ss of exon 5
gtaagtgattggaagttcccttcatttttaatctgttataattgaggatgcaagttac--atggcgctaatttattt----ttttatattttatctgc-tagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
        |  |  || |   |   || | | |||  | |||   | ||   |||||   ||||  ||| ||| |||    |||  | |  ||| |    |||||||||| ||||| ||||| |||||||| || || || ||||| || ||||| ||||| || ||||| ||||||||||| ||||| || |||||||| |
-------gtatgtggtccttcttccttgtgagctggga-aatactgcatcacagttagtgatggatctattttgtttactatttgctgtactatttttgcagGTTGTTGAACTTCCTATGCTTCACCCAGAAAAGTTTGTCAAGCTTGGTATTGACCCTCCGAAAGGTGTCCTTTGCTATGGCCCACCTGGTACTGGCAAGA

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------gtaagtgattggaa-gttcccttcatttttaatctgttataattgaggatgcaagttacatggcgctaatttatttttttatattt-tatctg-----ctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                                        || |   ||  |  ||  | ||| |  ||||    |  |  ||||   ||  |  | | || |  |   || |||  | |||||| || ||      |||||| |||||||| || ||||||||||| ||||| || || ||||| |||||||||||||| ||||||||||| ||||||||||| || || || || ||||
gtgtgtatattctttttacatttttttttgtcagatcatatatgcatttacaccgtgtctttcttgattaacagctagtttttgatcctgtgaacttc-tgtccttctcttgtttgctgatatttataactttggctctagGTGGTTGAGCTCCCTATGCTCCACCCTGAGAAGTTTGTGAAGCTTGGAATTGATCCTCCTAAGGGTGTTCTCTGCTATGGTCCTCCTGGAACCGGTAAAA

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ13722 (Selaginella moellendorffii), 3'ss of exon 6
gtaagtgattggaagttcccttcatttttaatctgttataattgaggatgcaagttacatggcgctaatttatttttttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                            |||      |  |||    ||     || |  | ||   || |    |||||    |       |||||||| |||||||| |||||||| || ||||| ||  | ||||| ||||| |||||||| || || ||||||||||| || || || || ||||| ||||
---------------------------gtaacta--caccattttacatttggtttcctcgtcgacgatcttaacttttacgcata------tagGTTGTAGAGCTTCCTATGCTCCATCCTGAGAAGTTTATCAAGCTTGGAATCGATCCTCCCAAAGGAGTTCTTTGCTACGGCCCTCCGGGAACTGGGAAAA

upper sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ29161 (Selaginella moellendorffii), 3'ss of exon 6
gtaagtgattggaagttcccttcatttttaatctgttataattgaggatgcaagttacatggcgctaatttatttttttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                            |||      |  |||    ||     || |  | ||   || |    |||||    |       |||||||| |||||||| ||||||||||| || || ||  | ||||| ||||| |||||||| || || ||||||||||| || || || || ||||| ||||
---------------------------gtaacta--caccattttacatttggttttctcgtcgacgatcttaacttttacgcata------tagGTTGTAGAGCTTCCTATGCTCCACCCTGAAAAGTTTATCAAGCTTGGAATCGATCCTCCCAAAGGAGTTCTTTGCTACGGCCCTCCGGGAACTGGGAAAA

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|151411562|gb|EV281373.1|EV281373
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|18040702|gb|BM308996.1|BM308996
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|254338828|gb|GR847545.1|GR847545
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|151410157|gb|EV279965.1|EV279965
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|151406841|gb|EV276656.1|EV276656
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|254320308|gb|GR831116.1|GR831116
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
EST: gi|207819475|gb|GD791215.1|GD791215
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCA
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCA
EST: gi|193656425|gb|FK602897.1|FK602897
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAAgtaagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaggatgcaagttacatggcgctaatttatttttttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                      cgctaat  putative branch site (score: 3)
                                tttttttatatttt  putative PPT
                         taatttatttttttat  TA-rich tract