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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgcatgccctcttctcttgtctcataatatataattaacatgcatgcaaaaaattacttaaatagatacatgtatgattcatggaactgaatgaatcaatgaatcaatgaatcaaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG

Basic information

species Glycine max
transcript GLYMA11G35030.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35030.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 3'ss of exon 1
gtatgtgcatgccctcttctcttgtctcataatatat-aattaacatgcatgcaaaaaattacttaaatagatacatgtatgattcatggaactgaatgaatcaatgaatcaatgaatcaaatgatc---agATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG
                             || ||||  || ||  |     | ||| | | |   |   |  ||  | ||   ||    ||     ||  ||   ||  | |||       ||  ||   ||||  | || ||  ||||||| ||||| || ||||||||||| ||| ||||||| ||||| ||||| || || || |||||||| ||  | || || || |
---------------------------gttagtataccaactactactgcagtaaagattcagagatggaagtatttttactgttttctgagt--gattgatttttgttttaatttgcgcgatcttccacagATCCTTGCCCCACTGCCAATCGGGTTTGCGGTGTTCTTGGTTCACCTGGCCACCATCCCCATCACCGGCACCGGCATCAACCCAGCGAGGAGCCTTGGCG

upper sequence: GLYMA11G35030.1 (Glycine max), 3'ss of exon 2
lower sequence: AC209208.3_FGT002 (Zea mays), 3'ss of exon 2
gtatgtgcatgccctcttctcttgtctcataatatataattaacatgcatgcaaaaaattacttaaatagatacatgt-atgattcatggaactgaatgaatcaatgaatcaatgaatcaa-atgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG
                       || |   || | ||  | || ||| ||||| |      |||  ||| |||  | | ||  |   |  |     | || | |||||| |  | | |       | |||||  | || ||  |||||||||||||||| |||||| |||| ||| | ||||| ||||| || ||||| ||||| |||||||| ||  | || || || |
-----------------------gtgtttcaacaaat--tgaaaatgtatgcata----ctcttcgatacatatttttcatattgtgttaagacttacga-tgaatgaaacccttatttggtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCG

upper sequence: GLYMA11G35030.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G392975_T03 (Zea mays), 3'ss of exon 2
gtatgtgcatgccctcttctcttgtctcataatatataattaacatgcatgcaaaaaattacttaaatagatacatgtatgattcat-ggaactgaatgaatcaatgaa-tcaatgaatcaaatgat-----cagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG
                                 |   | | || || |||||| |   ||   || || |     |  ||  |  ||    ||| |  |  ||||||||  | || | |    || |     |||||  | || ||  |||||||||||||||| |||||| |||| ||| | ||||| ||||| ||||| || || || |||||||| ||  | || || || |
--------------------------------aacgaattgaaaatacatgcatactcttcaatacat-gtcgttttcatattgtattaagacttaccg--tcaatgaaacccattatttttttggtgaaaacagATCCTTGCCCCACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATCACCGGCACCGGCATCAACCCGGCTAGGAGCCTTGGCG

upper sequence: GLYMA11G35030.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S1_535V6.2 (Physcomitrella patens), 3'ss of exon 2
gtatgtgcatgccctcttctcttgtctcataatatataattaacatgcatgcaaaaaattacttaaatagatacatgtatgattcatggaactgaatgaatc---aatgaatcaatgaatcaaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG
||  || ||   ||  |||   ||      | |     |||| |  || ||  |     |   |     |||   ||  |  | |    |  |  |||       |||||  |  |       |    ||| |  | || ||  | || || || ||||| || ||| |||||||||||||||| || || ||||| |||||||| |||||||| || || ||||| ||||
gtgagtacac-tccgtttccggtgcagttcagttctagattaccgcgcctgagacgtgctggct-----gatctttg-gtactcctcacagttagatggtctcaaaatgatgctcttcgatggacttgcagGTGCTTGCGCCTCTTCCCATCGGATTCGCAGTTTTCCTGGTGCACTTGGCCACCATTCCCATCACCGGAACTGGCATCAACCCCGCCCGTAGTCTAGGTG

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|254315524|gb|GR825333.1|GR825333
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
EST: gi|209703049|gb|BW656082.1|BW656082
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
EST: gi|9898746|gb|BE607714.1|BE607714
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTGTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
EST: gi|4313534|gb|AI460653.1|AI460653
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
EST: gi|151407326|gb|EV277141.1|EV277141
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
EST: gi|7588404|gb|AW704200.1|AW704200
EST:     TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCT                         ATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC
genomic: TTTTCTCTGCCACCGATGCCAAGCGTAGCGCTAGAGACTCACACGTCCCTgtatgtgcat ... aaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtatgattcatggaactgaatgaatcaatgaatcaatgaatcaaatgatcagATTTTGGCACCCTTGCCAATTGGGTTCGCTGTGTTCTTGGTGCACTTGGCCACAATCCCAATCACTGGAACTGGTATCAACCCTGCACGAAGTCTCGGTG
                                         aatcaaat  TA-rich tract