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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgctgctgctgctgcgttgcaattttttactcaatttagaaaccctgaagttcagttctagtataactgttattgacattggtatttggttttgtttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT

Basic information

species Glycine max
transcript GLYMA02G41170.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G41170.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G089454_T01 (Zea mays), 3'ss of exon 2
gtgagttgctgctgctgctgcgttgcaattttttactcaatttagaaaccctgaagttcagttctagtataactgttattgacattggtatttggttttgtttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT
                        | |    |  ||||| |  ||| ||  |    |    | || || |        ||||  ||  |   ||| ||   |    ||||||| || |||||||||||||||||||||||||||
------------------------gtatgcatcaactcagtcaagatacattaccatgttat-ctggtgtt-------ttgattttaattcatggcttctgtgctttgcagACAGGTGGCTACAGTGAGGACATGATTCCAACT

upper sequence: GLYMA02G41170.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G171060_T02 (Zea mays), 3'ss of exon 3
gtgagttgctgctgctgctgcgttgcaattttttactcaatttagaaaccctgaagttcagttctagtataactgttattgacattggtatttggttttgtttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT
                   |  | |||     | |||||| |||  |    || | | |  | || | ||   |||| ||||   |  |   ||| |    |     |||||| || |||||||||||||||||||||||||| 
-------------------gtat-gcatcaactcactcaacttaaga----tgcattaccatgcttg-attggtgtt-ttgattctaatccatggctgctgtgcttcgcagACAGGTGGCTACAGTGAGGACATGATTCCAACG

upper sequence: GLYMA02G41170.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0006g01090.t01 (Vitis vinifera), 3'ss of exon 3
gtgagttgctgctgctgctgcgttgcaattttttactcaatttagaaaccctgaagttcagttctagtataact--gttattgacattggtatttggttttgtttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT
                                | | | ||     || |  ||   |||  ||||  |||   |  || |||  | ||      || |  | || |    ||||| || |||||||||||||||||||||||||||
-------------------------------gtgagtgaacaccaaatctgtgtgattcctttctgttattgtttagtgattttcttttaaccatgatgct-ttcataaccagACAGGAGGCTACAGTGAGGACATGATTCCAACT

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|151393791|gb|EV263666.1|EV263666
EST:     TTGTTGGCCTTCAGAATGCTGGCAAGACTTCTCTTGTCAATGCAATTGCT                         ACTGGGGGCTACAGTGAGGACATGATTCCAACT
genomic: TTGTTGGCCTTCAGAATGCTGGCAAGACTTCTCTTGTCAATGCAATTGCTgtgagttgct ... ttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT
EST: gi|8826727|gb|BE210457.1|BE210457
EST:     TTGTTGGCCTTCAGAATGCTGGCAAGACTTCTCTTGTCAATGCAATTGCT                         ACTGGGGGCTACAGTGAGGACATGATTCCAACT
genomic: TTGTTGGCCTTCAGAATGCTGGCAAGACTTCTCTTGTCAATGCAATTGCTgtgagttgct ... ttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagttctagtataactgttattgacattggtatttggttttgtttacctgcagACTGGGGGCTACAGTGAGGACATGATTCCAACT
                    tattgac  putative branch site (score: 2)
                                       ttttgttt  putative PPT
                                       ttttgttta  TA-rich tract