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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgattggaagttcccttgatttttaatctgttataattgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA

Basic information

species Glycine max
transcript GLYMA03G42370.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g54340.1 (Oryza sativa), 3'ss of exon 6
-----------gttagtgattggaagttcccttgatttttaatctgtt-ataattgcggatgtaagttacatggtgctaattttatttatttatattttatctgcta-----------------gGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
            ||  | | |  |  | || |    |   ||  || | ||  ||| | ||  | | ||  | ||  |    ||||||   ||| |  | | |||||                 ||||||||||||||||||||| ||||| ||||| || || ||||| || ||||||||||||||||| || ||||||||||| || || || ||||||||||
gtatactaatcttttttcagttcatatcccttgtcgtgcaaacttgctcatccttgtgcat-caggctagttagttttggacttattttgctatttactgtttgctaattattgtttgttcatagGTTGTTGAGCTTCCCATGCTTCACCCAGAGAAGTTTGTCAAGCTTGGTATTGATCCTCCAAAGGGGGTCCTTTGCTATGGCCCTCCTGGAACTGGCAAAA

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 6
gttagtgattggaagttcccttgatttttaatctgttataattgcggatgtaagtta--catggtgctaattttatt------tatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
    ||   ||    ||   |    || | | |||  | | |   | ||   |||||   | ||  ||| |||  ||      |  || ||  || | ||| |||||||||| ||||| ||||| ||||| || || || || ||||| || |||||||||||||| || || ||||||||||| ||||| || |||||||| |
----gtatgtgatccttttttcttcttgtgagctggcaca-tactgcatcatagttagttacgggactagtttggttactctgtgcttgtaccttttttgc-agGTTGTTGAACTTCCTATGCTTCACCCAGAAAAGTTTGTCAAGCTTGGTATTGATCCTCCAAAAGGCGTCCTTTGCTATGGCCCACCTGGCACTGGCAAGA

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G110185_T04 (Zea mays), 3'ss of exon 5
gttagtgattggaagttcccttgatttttaatctgttataattgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
||  ||| |      | |   |||  |   |  |  |  | |  | | |     |       |  |  ||    ||   | || | | | ||| |||||||||| ||||| ||||| ||||| || || || || ||||| || ||||| ||||| || ||||| ||||||||||| ||||| || |||||||| |
gtatgtggtccttcttccttgtgagctgggaaatactgca-tcacagttagtgatggatctattttgtttactatttgctgtactatttttgc-agGTTGTTGAACTTCCTATGCTTCACCCAGAAAAGTTTGTCAAGCTTGGTATTGACCCTCCGAAAGGTGTCCTTTGCTATGGCCCACCTGGTACTGGCAAGA

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------gttagtgattggaagttcccttgatttttaatctgttat-aattgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                                           |    |     |    |  |||||||   |    ||| |  ||   |        |  | |  |  |  ||     ||||||||  ||     |||||| |||||||| || ||||||||||||||||| || || ||||| |||||||||||||| ||||||||||| ||||||||||| || || || || ||||
gtgtgtatattctttttacatttttttttgtcagatcatatatgcatttacaccgtgtctttcttgattaacagctagtttttgatcctgtgaacttctgtccttctcttgtttgctgatatttataactttggctctagGTGGTTGAGCTCCCTATGCTCCACCCTGAGAAGTTTGTGAAGCTTGGAATTGATCCTCCTAAGGGTGTTCTCTGCTATGGTCCTCCTGGAACCGGTAAAA

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: EFJ13722 (Selaginella moellendorffii), 3'ss of exon 6
gttagtgattggaagttcccttgatttttaatctgttataattgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                            |||      |  |||    || |   || |  |  |   || |||  | ||||    |       |||||||| |||||||| |||||||| |||||||| ||  | ||||| ||||| |||||||| || || ||||||||||| || || || || ||||| ||||
---------------------------gtaacta--caccattttacatttggtttcctcgtcgacgatcttaact-tttacgcata------tagGTTGTAGAGCTTCCTATGCTCCATCCTGAGAAGTTTATCAAGCTTGGAATCGATCCTCCCAAAGGAGTTCTTTGCTACGGCCCTCCGGGAACTGGGAAAA

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 6
lower sequence: EFJ29161 (Selaginella moellendorffii), 3'ss of exon 6
gttagtgattggaagttcccttgatttttaatctgttataattgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                            |||      |  |||    || |   || |  |  |   || |||  | ||||    |       |||||||| |||||||| |||||||||||||| || ||  | ||||| ||||| |||||||| || || ||||||||||| || || || || ||||| ||||
---------------------------gtaacta--caccattttacatttggttttctcgtcgacgatcttaact-tttacgcata------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|213589227|gb|DB957759.1|DB957759
EST:     ATATAATGGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCA
genomic: ATATAATG-ATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCA
EST: gi|208025660|gb|GD822014.1|GD822014
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|16277955|gb|BI942651.1|BI942651
EST:     TGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: TGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|193364388|gb|FK328893.1|FK328893
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|209702899|gb|BW667434.1|BW667434
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|193323486|gb|FK289148.1|FK289148
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|207796307|gb|GD770244.1|GD770244
EST:     TGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: TGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|207686291|gb|GD667873.1|GD667873
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|193335921|gb|FK300621.1|FK300621
EST:     GATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: GATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|37994041|gb|CF805787.1|CF805787
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|207688315|gb|GD672164.1|GD672164
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAAAT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAA-T
EST: gi|193632616|gb|FK583292.1|FK583292
EST:     TTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: TTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|193637984|gb|FK586220.1|FK586220
EST:     ATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: ATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|208158165|gb|GD955174.1|GD955174
EST:     TATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: TATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|208127872|gb|GD924022.1|GD924022
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAA
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAA
EST: gi|208077302|gb|GD876961.1|GD876961
EST:     CATATAATGATGTAGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|151405667|gb|EV275481.1|EV275481
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         A
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctag-
EST: gi|151405667|gb|EV275481.1|EV275481
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         A
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctag-
EST: gi|192301329|gb|FG990219.1|FG990219
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|208135507|gb|GD937948.1|GD937948
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|207688552|gb|GD671743.1|GD671743
EST:     CATATAATGATGTTGGTGGTTGTAAGGAACAGATTGAAAAAATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCAGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
EST: gi|193528836|gb|FK483596.1|FK483596
EST:     CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAA                         GTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT
genomic: CATATAATGATGTTGGTGGTTGTAAGGAGCAGATTGAAAAGATGCGAGAAgttagtgatt ... tatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcggatgtaagttacatggtgctaattttatttatttatattttatctgctagGTTGTTGAGCTTCCCATGCTCCACCCTGAGAAATTCGTTAAGCTAGGAATTGATCCTCCAAAGGGTGTTCTTTGCTATGGTCCACCAGGGACTGGCAAAA
                     tgctaat  putative branch site (score: 2)
                                          ttttatct  putative PPT
             ttacatggtgctaatt  TA-rich tract