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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatgtgatactgttatggtagaaaacaattaatctgaatcatgaacattcaatatctattaaacaatacattgtgttcccccctttttagtttctaatgtttttctcaatgatttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA

Basic information

species Glycine max
transcript GLYMA08G33560.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G33560.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g23890.4 (Oryza sativa), 3'ss of exon 8
gtgaatgtgatactgttatggtagaaaacaattaatctgaatcatgaacattcaatatctattaaacaatacattgtgttcccccctttttagtttctaatgtttttctcaatgatttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA
  | || ||| |    | ||  | |    | |       | |   || | | |||| | ||   |  | |   |  || |  |  | |  ||||   |      | | | | ||          |||| || |||||||||||||||||||| ||||| ||||||||||||||||| |||||| | |  |||||||| || ||||  ||||||  ||| ||||| |
--gtatctgaaaaatctgtgccaaatgctactcccaagtattttggagcttgcaatttttaactagtagtgggt-atgattactacatggtagtgattg-cacatctgtgagtg---------cagGGGGAGCTTCAATACTTCATTGGTGTGCAACTTGATGGAAGTGATCATGTTGAACCCCTCAGGAACCGCCTTTCGGAGAATACTGAGATACAGAGTGCCA

upper sequence: GLYMA08G33560.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G032351_T01 (Zea mays), 3'ss of exon 7
gtgaatgtgatactgttatggtagaaaacaattaatctgaatcatgaacattcaatatctattaaacaatacattgtgttcccccctttttagtttctaatgt-ttttctcaatgatttg--tatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA
                                           |   ||   | |||||| ||   |||    |||    |       | | ||  |        |   |  || |||||  ||| ||||| || ||||||||||||||||| |||||| | |||||||| || ||||| |||||| | |  || || || |||||||  ||||| | |||||||||||
-----------------------------------------gtactcactggctatatctcttgt-caacttgttgcacacttgttcatgtggtaccgtgcacactcattttattatttgggtatgtagGGAGAGCTTCAATACTTCATTGGAGTTCAATTGGATGGAAGCGACCATGTTGAACCCCTTAGGAATCGTCTCTCTGAGAACACTGAACTACAAAGTGCTA

upper sequence: GLYMA08G33560.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G58140.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgaatgtgatactgttatggt-agaaaacaatta-atctgaatcatgaacattcaatatctattaaacaatacattgtgttcccccctttttagtttctaatgtttttctcaatgatttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA
              ||  | || |||  |   ||| ||||| ||   ||   || || |      ||||  | ||||||          |  |  || |  |||  ||| |   | || | |   ||||| || |||||||||||||| ||||| || || |||||||||||||||||||| ||| |  |||| ||  ||||||||| ||| |||   || ||| | |
--------------gtcttcgtgagattattgttatatctggattccgattcttgaaga------aaaccgtgcattgt----------tgctgattac--atgactttat---tcatctat---tagGGAGAGCTTCAATACTTCATCGGTGTGCAGCTTGATGGAAGTGATCATGTAGAGCCCCTCCAAAATCGTTTGTCTGAGAGAACAGAGATGCAGAGTTCGA

upper sequence: GLYMA08G33560.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 8
gtgaatgtgatactgttatggtagaaaacaattaatctgaatcatgaacattcaatatctattaaacaatacattgtgttcccccctttttagtttctaatgtttttctcaatgatttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA
|||  | ||| |   ||||  || | |||  ||||| ||  |  || |     |  || ||||         ||  ||   |  ||||  |   ||   | || |       || | | |   ||||||||||||||||||||||||||||| ||| ||||||||||||||||| | |||||| |   |||||||||||| |||  ||||||||||||||||||||
gtggctatgagatacttattctatataactcttaatttgg-ttttggatgaagagaatgtatt--------tatgctgcagcttccttcatgactttccaagtctcc-----tgttatattcgtagGGTGAACTTCAATACTTCATTGGTGTCCAATTAGATGGAAGTGATCATCTGGAACCCCTCCGAAACCGCCTGTCAGAGCAAACTGAGCAACAAAGTGCTA

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|31306491|gb|CD391694.1|CD391694
EST:     GGAAAAAGTTCTGGAATTTGTTTCACTTGCAACCTATGCGTGACCAAAAG                         GGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTA
genomic: GGAAAAAGTTCTGGAATTTGTTTCACTTGCAACCTATGCGTGACCAAAAGgtgaatgtga ... ttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgtgttcccccctttttagtttctaatgtttttctcaatgatttgtatttagGGTGAACTTCAATACTTCATTGGTGTTCAACTAGATGGAAGTGATCATGTAGAACCCTTAAAAAACCGCCTGTCTGAGACAACTGAGCAACAAAGTGCTA
                       ttctaat  putative branch site (score: 2)
               tttttagtttctaatg  TA-rich tract