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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

Basic information

species Glycine max
transcript GLYMA20G24820.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os12g44330.2 (Oryza sativa), 3'ss of exon 8
gtatgcctaaaatactgttgtgtttagattgtttcttttca-aaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
|| || || | ||| ||| | ||| | | | | | | || | || | | ||| ||| ||| ||| ||| || | || | || | |||| ||||||||||||||||| ||||||| ||||| ||||| ||||| ||| ||||||| | || || |||||||| ||||||||||| ||||| ||||
-----ttgaacatgcttgaatatttttatttatgcttgttatatactacagtcattg-tatctacagtaaacatcc--tttttaattttttgtctt--gatattcttt-------agGTGAATGAGGCTAAGAATGTGCTGAAGCTCTGTGATTTTGGCAATGCAATGCTTGCTGGAATGAACGAGGTTACACCTTATCTTGTGAGCCGTTTCTATC

upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G151236_T03 (Zea mays), 3'ss of exon 7
gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
| | ||| ||| | | | | ||| | | | | | | || ||| || || | | | || | | || | | || | | |||| ||||||||||||||||| | ||||| ||||| ||||| ||||| ||| ||||||||| ||||||||||| || |||||||| || ||||| ||||
--cttcttaatataagctcggg----ggctgtcttacccccgcaggtcgagttttttttttttaaattaacaccg----tttattactgtgtccattgcttgtaccct------agGTGAATGAGGCTAAGAATGTGCTCAAGCTATGTGATTTTGGGAATGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTTAGCCGTTTCTATC

upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G147811_T01 (Zea mays), 3'ss of exon 8
----------------------------------------------------------------------------gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
|| | ||||| ||| || | | | || | || ||||| |||| || | || |||| | |||| | |||||| | | || || | | | || | |||| ||||||||||||||||| | ||| | ||||| ||||| || || ||| ||||||||| ||||||||||| || |||||||| || ||||| ||||
gtacgccatctttgcttgtcatcatttttaattatagtattattgcaagttctctttctcaacaggaattgcatcttaatacataaaa-actattttttggatatgctgtcatttcattcttttacgcacaaaatgcac-----aataccaatttaacaccatttatgtgtcca-ttgcttgtatt--ctagGTGAATGAGGCTAAGAATGTGCTCAAGGTATGTGATTTTGGCAACGCTATGCTTGCTGGTATGAATGAAGTTACGCCTTATCTTGTCAGCCGTTTCTATC

upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
|| | | ||| || ||| | | | | | |||||||| || | |||| | ||| | |||| ||||||| || ||||| || ||||||||||| ||||||||||| |||||||| || ||||| ||||||||||| |||||||| ||||| |||||
--------------------------------gtcagtcacacttttcattggttttctcctacttaattcaatagctttctaactgttgggtctttga---------ttgtccagGTCAATGAGGGGAAAAATGTCTTAAAGCTTTGTGATTTTGGTAATGCAATGTTTGCAGGCAAAAACGAAGTTACACCGTATCTTGTTAGTCGCTTTTACA

upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: AT1G13350.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
|| | | ||| || |||| | | | || || | || || |||| | | || | |||| || | |||| ||||||| | || || ||||||||||||||||||| ||| ||||||||||||| ||| |||||||||||||||||||| ||||| || ||
-----------------------gtaagctata-cttgtctgtgtttt-tctcctgctt-------gatgcacataaattttaacttctggtcgt------tccttgattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA

upper sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 8
gtatgcctaaa--atactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
||| | | || ||||| || ||| || ||| | || | |||| ||||||| || |||| | | || | | | | ||| ||||||| ||||||||||||| || ||||| |||| || ||||| |||||||||||||||||| |||||||||||||| ||||||||||||||||||| || |||||||
gtaggttttaagtatacttttatgtccag-ttgcctgcctt-agttttttatttgttat-------aataaat-tttgcattgaattttactatatattcattgcctctttc----agGTAAATGAGGCCAAAAATGTCCTGAAACTCTGTGATTTTGGTAATGCCATGTTTTCTGGTAAAAATGAAATTACACCATATCTTGTGAGCCGCTTTTATC

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|254316086|gb|GR825895.1|GR825895
EST:     TCCGGAACTGTGGTGTTCTTCATTGTGATATAAAGCCAGATAATATGTTG                         GTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATG
genomic: TCCGGAACTGTGGTGTTCTTCATTGTGATATAAAGCCAGATAATATGTTGgtatgcctaa ... ttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC
                 ttctaac  putative branch site (score: 1)
 ttcttcaatttcctct  putative PPT
 aaatatctattttcta  TA-rich tract