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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgaacattacaatatcttacattactcttcagtagttgaaataaaatttgtggtgtagcaaatgatttctgttttcatcacctaactgctagGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA

Basic information

species Glycine max
transcript GLYMA12G09060.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g63870.1 (Oryza sativa), 3'ss of exon 4
gtaag-ttgaacattacaatatcttacattact--cttcagtagttgaaataaaatttgtggtgtagcaaat--gatttctg--ttttcatcacctaactgctagGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA
||||| ||     | | | |   ||    || |  || ||    |   | | |    |||| |   |||| |   ||| |||   |||     |     |  ||||||||||| | ||| |  || ||||||||  | |||||  | || || | | | |||||||| ||||||| ||| |||||||||||||| ||| ||||||
gtaagatttgggctaatagttatttgagctaatacctccatctatgctagtcattagtgtgattatgcaattctaattgctgaacttttggtgctgccttcttagGTTCCTCTTGCTCTAGGGATCACATGGGCTATCGCTTTTGTTCTAACAGCAACTGGAGTTTATAGCTACAGAGGTTGTGATGCAAATATTCCTGCCTCAA

upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G095611_T01 (Zea mays), 3'ss of exon 6
gtaag-ttgaacattacaatatcttac-----attactcttcagtagttgaaataaaatttg--tggtgt-agcaaatgatttctgttttcatcacctaactgct--agGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA
||||| ||     |||  |  |  |       |||     |  | |  ||   |  |   ||  || | | ||    | |||||||   |  | |     |  ||  |||||||||| ||  | | ||| ||||||||  |||||||| | || || | | | |||||||| ||||||||||| |||||||||||||| ||| ||||||
gtaagattttctcttatgaagttatgatgttgattgaatgtgtggatctgtgctgcatgctggttgatatgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA

upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 6
---------------gtaagttgaacattacaatatctta-cattactcttcagtagttgaaataaaatttgtggtgtagcaaatgatttctgttttcatcacctaact----------gctagGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA
                 || |  | ||||  |  ||  |  ||||  | || | |  |    ||| |  ||||  ||       |   |||| |    || |  |  ||          |  |||||||| ||||||||||||| || |||||   ||||||| | |||||||| ||||||||||| | ||||||||| ||||||| |||| ||||  |||| |
gtatgtttattgtttacaaatcca-cattttatcattgtgtcattgttgttgatttttgagcatatatcttgttatgccaactgtaccttctttgagtataatttgcctatattttggtgtcagGTTCCTTTGGGTCTGGCAATCACGTGGGCCACTGCTTTCCTTCTGACTGAGGCAGGAGTTTATAACTACAAAGGTTGTGATGTAAATGTACCAGCCTCTA

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|20075721|gb|BQ094504.1|BQ094504
EST:     ATCTTCGTAAGATATCTGTTCTTGGACATCGCATATTTCTAATATATGCG                         GTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAA
genomic: ATCTTCGTAAGATATCTGTTCTTGGACATCGCATATTTCTAATATATGCGgtaagttgaa ... taactgctagGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaataaaatttgtggtgtagcaaatgatttctgttttcatcacctaactgctagGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA
                                          acctaac  putative branch site (score: 2)
     aaaatttgt  TA-rich tract