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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttttagtttgccttgaaaaaatatcctttaagagtataaaaggcaagcttttatattttaatgggagaaattaagtagattttctccaccttagtagaaagtgtgtgtgttttcaaccagttttctaacatagaatcttcgtgtaaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTGTTGATGGCTATATTCTCAATCTACACTGGCTTTATCTATAATGAGTTCT

Basic information

species Glycine max
transcript GLYMA12G04330.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G04330.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv03s0038g00290.t01 (Vitis vinifera), 3'ss of exon 11
gtatccttttagtttgccttgaaaaaatatcctttaagagtataaaaggcaagcttttatattttaatgggagaaattaagtagattttctccaccttagtagaaagtgtgtgtgttttcaaccagttttctaacatagaatcttcgtgtaaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTGTTGATGGCTATATTCTCAATCTACACTGGCTTTATCTATAATGAGTTCT
                                          ||  ||      |||| | ||| |    ||     |  | || || |||   | ||| ||  |               ||| | |||   | |||       ||   ||||  ||||||||| |  |||||||| || ||||| ||||| || |||||||||||  || |||||||  | |||||||| || ||||| || || |||||||||||||
--------------------------------------ctcctattagttgtcattttttttttcagcatgatttcctttgaag-ttctcttatctttaatatcaga-------------aactaatttctcaccat-------tctattaaactacagAAGCTCGGAGACATCACAGAAATGACCTTTGGTGGCCGTTATGTTATACTGATGATGGCACTCTTCTCAATTTATACTGGTTTGATTTATAATGAGTTCT

upper sequence: GLYMA12G04330.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S60_200V6.1 (Physcomitrella patens), 3'ss of exon 10
gtatccttttagtttgccttgaaaaaatatcctttaagagtataaaaggcaagcttttatattttaatgggagaaattaagtagattttctccaccttagtagaaagtgtgtgtgttttcaaccagttttctaacatagaatcttcgtgtaaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTGTTGATGGCTATATTCTCAATCTACACTGGCTTTATCTATAATGAGTTCT
||||  ||||  ||||   || | |     | ||||     |  | | ||     ||| | ||    |   |   || |   | ||||      |||||     ||   |   || |   ||  |  |||      ||  ||  |  ||       ||||| || |  ||||||| ||||||| | | ||||||||||||||| ||| |  |||||||||| ||||| || |||||||| || || ||||| |||||||
gtatatttttgttttg---tggaga-----cttttacagccagtagatgcttatatttctgttcatgttcaaactataagtgaaatttaagattcctta-----aaacttacatgctaaaaattaaattt------tatgatactgttg-------cagAAACTCGGCGACATCATGGAGATGGCGTATGGAGGTCGTTATGTAATTCTTCTGATGGCTATTTTCTCTATTTACACTGGTTTCATATATAACGAGTTCT

upper sequence: GLYMA12G04330.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S6_159V6.1 (Physcomitrella patens), 3'ss of exon 10
----------gtatccttttagtttgccttgaaaaaatatcctttaagagtataaaaggcaagcttttatattttaatgggagaaattaagtagattttctccaccttagtagaaagtgtgtgtgttttcaaccagttttctaacatagaatcttcgtgtaaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTGTTGATGGCTATATTCTCAATCTACACTGGCTTTATCTATAATGAGTTCT
          | | | |   ||  |   ||||| |  |     ||  |  | |  |    ||| || | |    | |  | |  |     |||| |     | | |   | |    | |  |  ||||  |  |   |   |||  ||  ||  |    |      ||||| || | ||| || | ||||||| ||| ||||||||||||||| ||| | ||||||||||| ||||| ||||||||||| || || || ||||||||||
gtacatttctggagcatggaagagtcttttgaacagttgattcttgtggttttgtag---aagtttgtgtgcgcttacagcatgagcactgtagttcaaaactatcgccggaactggag-attcgtttcaagtcgtatggttaaactaatattgtgacattgttg-cagAAACTCGGTGATATTATGGAGATGGCTTATGGAGGTCGTTATGTAATTCTTTTGATGGCTATTTTCTCCATCTACACTGGTTTCATATACAATGAGTTCT

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|208337300|gb|GE133394.1|GE133394
EST:     TACTGGCAGCTCTATATTTCATAATCAGGGAGAAGAAACTTTCTAGCCAG                         AAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTG
genomic: TACTGGCAGCTCTATATTTCATAATCAGGGAGAAGAAACTTTCTAGCCAGgtatcctttt ... taaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtgtgtgtgttttcaaccagttttctaacatagaatcttcgtgtaaaaaacagAAGCTTGATGACATCACGGAGATGACTTTTGGAGGTCGTTATGTTATTTTGTTGATGGCTATATTCTCAATCTACACTGGCTTTATCTATAATGAGTTCT
                        ttctaac  putative branch site (score: 1)
                                           tgtaaaaaa  TA-rich tract