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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgctgagtagtgtctgtcccaattgccgtgttgtaattttttgttctatatctctctgattgactgatactaataatgacatgacctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATACAGGGATTATGACCAATTAAACATGGTGAGAATGGCTATCTGGCCAACT

Basic information

species Glycine max
transcript GLYMA20G23910.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G23910.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G090627_T01 (Zea mays), 3'ss of exon 4
gtatgtgctgagtagtgtctgtcccaattgccgtgttgtaattttttgttctatatctctctgattgactgatactaataatgacatgacctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATACAGGGATTATGACCAATTAAACATGGTGAGAATGGCTATCTGGC-CAACT
                ||  || |  ||| ||    | |||  || |||     || |     | | |       ||  |   || || |     ||||||||| |||| |||||||||||||||||||| |||    |  |  ||||     | ||    ||| |    |||| | |||   |  | ||||||  |  | 
----------------gtaagtacagattacc---ctctaaccttgtgt---ggatttgcagaaataatcatatataccatctacttg-caaatttgcagTTACCTTGACAACAAGAAGGAGCACTGGTACCCTGGCTCCATGGTCGTCCTGCGCGACGTGGACGACACGAACAAGCTGAAGGTCTCCATCTGGTGCCGC-

upper sequence: GLYMA20G23910.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G027891_T01 (Zea mays), 3'ss of exon 5
gtatgtgctgagtagtgtctgtcccaattgccgtgttgtaatttttt---gttctatatctctctgattgactgatactaataatgacatgacctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATACAGGGATTATGACCAATTAAACATGGTGAGAATGGCTATCTGGCCAACT
||| || |||| |  || || |     |  || | |   |||||        |  ||| ||     | |     ||| | ||       | |    ||| ||||||| |||| |||||||||||||||||||| |||    |  |  | ||     | ||    ||| |    |||| | |||      | ||||||      
gtaagtactgattgatgccttt-----taaccctatatgaatttcccaaaaatacatacctaatgtactagtaaatatttatttatttttaaaaaaaatccagTTACCTTGACAACAAGAAGGAGCACTGGTACCCTGGCTCCATGGTGGTCCTGCGCGACGTGGACGACACGAACAAGCTGAAGGCCTCCATCTGGTGTCGC
















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|15203791|gb|BI426559.1|BI426559
EST:     ATATCTACCCCAGTTGAAAAGATTTCACTCATTAAACACAGAATACAAAG                         TTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATA
genomic: ATATCTACCCCAGTTGAAAAGATTTCACTCATTAAACACAGAATACAAAGgtatgtgctg ... ctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATA
EST: gi|51342542|gb|CO983522.1|CO983522
EST:     ATATCTACCCCAGTTGAAAAGATTTCACTCATTAAACACAGAATACAAAG                         TTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATA
genomic: ATATCTACCCCAGTTGAAAAGATTTCACTCATTAAACACAGAATACAAAGgtatgtgctg ... ctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttctatatctctctgattgactgatactaataatgacatgacctcaatgcagTTACATTGATAACAAGAAGGAGCACTGGTATCCTTCACCTTTAATCGTATACAGGGATTATGACCAATTAAACATGGTGAGAATGGCTATCTGGCCAACT
                           tactaat  putative branch site (score: 1)
                          atactaataat  TA-rich tract