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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG

Basic information

species Glycine max
transcript GLYMA07G28990.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 3
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                         ||| ||||     | ||  |||||||  ||  ||  |||        | |  | | |  | ||| |     |        || |    | ||||  |||||||  |  | || ||  ||||  | || || ||||| || || |||||||||||||| || |||||||| |||||||||||||||
----------------------------------------gtttgtgaat----tgttgctaatttg--atgatcagattgatgctgcagttcatttaagttatggtggtattaagcaatattctacc-gcagATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAG

upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G426306_T01 (Zea mays), 3'ss of exon 4
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                           |||| | ||||| |   || | |  |||  ||   | |  |  |  || ||     ||| |  |   |          | ||   |  ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||
------------------------------------------gtttgtaactaatttggttattatactatactcgtgtgatgaatttgttggaggtctttagtaatggtttgaagcaatgtggtacct-cagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG

upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 3
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattagaatgtgattagactcacttaatgctcac--tctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                           |||| | || || | | || | |  |||  ||   | |  |  |  || ||     ||| | || |   | || |      ||       ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||
------------------------------------------gtttgtaactgatttgattattatactatactcgtgtgatgaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG

upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 4
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatt-tgttattttctaattagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                           |||| | || || || || ||| |  ||   ||  || |  |  |  |  ||     | | |  |   | || |      ||       ||||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| |||||||||||||||
------------------------------------------gtttgtagctgat-ttgatgattatactacactcgcataatgaatttgtgggaggtcttgagtaatggtt-tgaagcaatgtggtaacacagATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG

upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttatt-ttctaattagaatgtgattagactcacttaatgc-tca---ctctgcatttgc----ttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                                      |    || |||    ||  || |||||  ||| | ||| ||||   ||| ||  |||    |||  ||||||    || | |||||||||| | ||||| |||||||||||  | || |||||||||||||| || || ||||| ||| |||| || ||||||||||| ||||||||||||
----------------------------------------------------gtttaggatcattcaccatcattgtaattttaatcttatt-gacttgtttattgtgtcaaccttctaaatttgcagtgttatctttgtagATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAG

upper sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattag-aatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                                           ||||    |  |||| ||| | || | |   || |||     | |  ||  | |  || ||    ||     | || | || |  ||||||||| | ||||| ||||| |||||  | || |||||||||||||| || |||||||| ||| |||| || || ||||| |||||||| || |||
------------------------------------------gtttggtgtttctattgatattgtgatttagcctcattgatggtctatttgaaatttctaaacttgcaagtatcgttcggtttttcttgtagATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAG

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|15815680|gb|BI787955.1|BI787955
EST:     GGCGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAG                         ATTGCTCAACACATCTTGCTTGACGCGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAGgtattggagt ... gtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
EST: gi|17400364|gb|BM177146.1|BM177146
EST:     GGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAG                         ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAGgtattggagt ... gtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
EST: gi|209712879|gb|BW679156.1|BW679156
EST:     GGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGC-AGAG                         ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA
genomic: GGTGTGTAGTTTTCATCTTCTTTCGGAATGTGCAGAGGTTGAAGCCAGAGgtattggagt ... gtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaatgtgattagactcacttaatgctcactctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG
                         tgctcac  putative branch site (score: 2)
                   acttaat  TA-rich tract