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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactgccttgttatctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG

Basic information

species Glycine max
transcript GLYMA17G11810.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g03620.1 (Oryza sativa), 3'ss of exon 4
----gtaagactgccttgttatctgccaacaat-ctgtttttgaatattgaatctaatgcagaatgtcattttgatattattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
     |   |||  ||  ||   |  |  || | |  ||| ||  | |  ||  |     |  |    || ||  |    |  |||||      ||||| || ||| || || |||||||| || ||||| |||||||||||||| ||||  ||||| ||||| ||||| ||||| |
gtacattgcactttctgatttattctcttcattgccatttgtgtgtttccaaatttccatattaataaatatttctgcattctgcagGCCAATATGGAAGAACCCTGGATTTTAATCAGCGTCTCGAAATCGCAATTGATGTTGCACATGCACTGACTTATCTTCATCTATATGCTG

upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G159992_T01 (Zea mays), 3'ss of exon 5
gtaagactgccttgttatctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
||||      |||   || |        ||  |||| ||  | |     ||      ||  | |  |   |    |  ||||||   | ||||| | ||||||| || |||||||| || |||||||||||||| || |||||||  || || ||||| |||||||||||||
gtaaattgtgcttcccatattgttttcttcacttttcgatcaatttgaataccttcaaacattacatgccttcattctgcagGTCAACATGGAAGAGTCCTAGATTTTAATCAGCGTCTAGAAATTGCAATTGACGTGGCTCATGCACTTACTTATCTTCATCTGTATGCAG

upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G061537_T02 (Zea mays), 3'ss of exon 4
gtaagactgccttgttatctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattat-tggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG----------
|||||  ||          ||| |    | ||| ||      |  ||  | ||   |  ||  ||||||  || || |  |||||   | |||   | |  | |  || |||||||| |||||||| || || |||||||| |||||  |||| ||||||||||| |||||||          
gtaagg-tgtaaaccagattgctagttttttgtattc---cttccaaaatgat-tggtctgatattttggaatcatctttcagGTCAACATGGCCTAGTTTTGGGATTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCCCATGGGTTGACTTATCTGCATCTCTATGCAGGTACACTTTG

upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G061537_T01 (Zea mays), 3'ss of exon 4
gtaagactgccttgttatctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattat-tggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
|||||  ||          ||| |    | ||| ||      |  ||  | ||   |  ||  ||||||  || || |  |||||   | |||   | |  | |  || |||||||| |||||||| || || |||||||| |||||  |||| ||||||||||| |||||||
gtaagg-tgtaaaccagattgctagttttttgtattc---cttccaaaatgat-tggtctgatattttggaatcatctttcagGTCAACATGGCCTAGTTTTGGGATTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCCCATGGGTTGACTTATCTGCATCTCTATGCAG

upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G055957_T02 (Zea mays), 3'ss of exon 4
gtaagactgccttgttatctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattat-tggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
|||||  ||          ||| |    | ||| ||     ||  ||  | ||   |  |   ||||||| || || |  |||||   | |||   | |  | |  || |||||||| || |||||||| || |||||||| |||||  |||| ||||||||||| |||||||
gtaag-ttgtaaaccagattgctagttttttgtattc---catccaaaatgat-tggtctaatattttgagatcatctttcagGTCAACATGGCCTAGTTTTGGGATTTAATCAGCGGCTCGAAATTGCTATAGATGTTGCCCATGGATTGACTTATCTGCATCTCTATGCAG

upper sequence: GLYMA17G11810.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0118g00210.t01 (Vitis vinifera), 3'ss of exon 4
gtaagactgccttgttat----ctgccaacaatctgtttttgaatattgaatctaatgcagaatgtcattttgatattattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
||||||||   |   |||     ||   |  |||    ||   | |   |    | ||   |  ||    |   || |  ||||||||  ||| || |||||||| || |||||||| || ||||||||  | |||||||||||||||| |||||| || || ||||| |||||||
gtaagactatttatctataagattgattaatatcctaattcatacagcaatgtcagtgttcatagttggct-actacttctggcagGTCAGCGGGGGAAAATCCTGGATTTCAATCAACGACTTGAAATCTCCATTGATGTTGCTCATGCCCTGACTTACCTCCATCTATATGCAG

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|193664201|gb|FK610433.1|FK610433
EST:     AACATTTGGATG                         GTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG
genomic: AACATTTGGATGgtaagactgc ... ttattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG
EST: gi|208132787|gb|GD927360.1|GD927360
EST:     TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATG                         GTATGCGTGGAAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATT
genomic: TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATGgtaagactgc ... ttattggcagGTATGCGTGGAAAAA-TCCTAGACTTCAATCAGCGCCTTGAAATTGCAATT
EST: gi|208304402|gb|GE103125.1|GE103125
EST:     TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATG                         GTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG
genomic: TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATGgtaagactgc ... ttattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG
EST: gi|208321373|gb|GE119510.1|GE119510
EST:     TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATG                         GTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG
genomic: TCTTATTACAGAGTTTGTGCCAAATGGTACCCTTAGAGAACATTTGGATGgtaagactgc ... ttattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgtttttgaatattgaatctaatgcagaatgtcattttgatattattggcagGTATGCGTGGAAAAATCCTAGACTTCAATCAGCGCCTTGAAATTGCAATTGATGTTGCTCATGGCCTGACCTATCTGCATCTGTATGCAG
     tttttgaatattgaat  TA-rich tract