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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttttaccattttgatttttcttttttgaatcatgcagttctctgctgattattatactgttaacaaaattatatagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA

Basic information

species Glycine max
transcript GLYMA10G32610.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 2
----------------------------------------------------------------------------------------------------------gtaatttttttaccattttgatttttcttttttgaatcatgcagttctctgctgattattatactgttaacaaaattat----------atagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA
                                                                                                            | |   |||  || |  ||| || |    |  | |  | |   | ||    |     | | |  | || |   ||            | |||| ||||||||||||||||| || |  ||| ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || ||||||||||||||||| || |
gtgtgttatgcaaccgattcatgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaattcttttaagaagttgctctgtgtgtttaatagacagtcagtttgacact--gatcttgccacatgaatttgtaccactgtcaaaagccacatgtgcgatcaatagtgttgctacttttttcacagACAGCAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACAGCAAACTCACAA

upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G150984_T02 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------------------------------------gtaatttttttaccattttgatttttcttttttgaatca---tgcagttctctgctgattatta-tactgttaacaaaattat-atagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA
                                                                                                             || | |||   ||   | |           |||| | ||   |  |   |    |   | || | || ||||   |   || | | |||| ||||||||||||||||| || |  ||| ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || ||||||||||||||||| || |
gtgtgttatgcaaccgattcctgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaatacttttaagaagttgctctgtgtgtttaatagacagtcagtttgacactgatcttgccacatgaatttgtaccactgtcaaaagccacacgtgtgatcaatagtgttgctacttttttcacagACAGCAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACAGCAAACTCACAA

upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G029134_T01 (Zea mays), 3'ss of exon 2
----------------------------------------------------------------------------------------------------------gtaatttttttaccattttgatttttcttttttgaatcatgcagttctc--------tgctgattatta-tactgttaacaaaattat-atagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA
                                                                                                            | |   |||  || |  ||| || |    |  | || | |   | ||          |   | || | || ||||   |   || | | |||| | ||||||||||||||| || |  ||| ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || |||||||||| |||||| || |
gtgtgttatgcaaccgattcctgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaatacttttaagaagttgctctgtgtgtttaatagacagtcagtttgacact--gatcttgcccaatgaattcgtaccactgtcaaaagccacacgtgtgatcaatagtgttgctacttttttcacagACAGAAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACATCAAACTCACAA

upper sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------gtaatttttttaccattttgatt----tttcttttttgaatcatgcagttctctgctgattattatactgttaacaaaattatatagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA
                                                      ||| ||     ||||||||| ||    |||  |||  |  | |||  |  |   ||| ||   ||| ||  |  ||  || | |  ||| | ||| ||||| || |||||||||||  |||| ||||| || |||||||| |||||||| ||||| |||||||| ||||| || |||||  | ||||
gtagaatgtgttgaaattctattattatatctttgagtatcagttgtttgcattgtatttccagcaccattttgcttaaagttttgtttccgcttaatgatgagcagcgctaatg--tatgcttctggcatgatcaca--gACAGGAAAGATCAACCAGGGAAATATAGCATTGAAAAGAGTAGTCGAGTCCATAGCAAATGGTGATTCTCATGTGCCGTTCAGAGATAGCAAGTTAACCA

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|7588672|gb|AW704462.1|AW704462
EST:     CAGAAAATATTGAACAAGCTGGTCAAACTGGATTTGAGGCCAAAATGCAG                         ACTGCATAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCC
genomic: CAGAAAATATTGAACAAGCTGGTCAAACTGGATTTGAGGCCAAAATGCAGgtaatttttt ... aattatatagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgaatcatgcagttctctgctgattattatactgttaacaaaattatatagACTGCAAAAATCAATCAAGGAAATATAGCTCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTCAGGGACAGCAAACTTACCA
                                    tgttaac  putative branch site (score: 2)
                        tgattattatactgtt  TA-rich tract