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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC

Basic information

species Glycine max
transcript GLYMA07G01240.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g37160.1 (Oryza sativa), 3'ss of exon 6
gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttg----gtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
                |   |  | ||  | ||   ||   | ||  | ||  || | |  |       | ||  |||    | | | || ||||  ||||| |||| ||||||||| || |||||    |||||| |    | ||||   |||||||| |||||||| |||||||||||  |||||||||| |
---------------gtagagcttccttctgaagactcttttgatgaactacttgttcccctcgatttgatttatttgaattgaactgttgcagGCTAGTGAGATCATATGGGCATCTCGTTGGGATGTCTATCTTCTTTCAAGTGATAGCCAGATCCATTGGTTCTCAATCATTAACTCACTGATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G55130.1 (Arabidopsis thaliana), 3'ss of exon 6
gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
       | | |||    ||  || ||    || | |    | || |  | ||  | |  ||| |   |||| ||     |  | | ||||| |||| |||||||||||| || || |||||||||||  |  | ||||| |||||||| ||||||||||| || ||||| |||||  | |||||||| |
------gtaactaa----tttact-ctggagaactctttatttatgcgctgta-aacatattatg---aagtatg-----aaatatgcagGAGAGTGTTATCAAATGGGCTTCGCGCTGGGACACATACTTGCTTATGAACGATGATCAAATCCACTGGTTTTCAATCATAAACTCGCTTATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G13772.1 (Arabidopsis thaliana), 3'ss of exon 6
gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
   |   ||| | | |  | | || ||  |     || || |  |   ||     | |  ||   ||  | |||| || |       ||||| ||||| ||||||||||| || ||||||||||| || ||| | ||||| |||||||| ||||||||||| |||||||| || ||  | |||||||| |
--gtacatgacttacacttagccttcttttg---ctttactttttgggttgctaaacatttt---ccggaatttgatgat------ccagGAGAGTGAAATCAAATGGGCTTCTCGGTGGGACACGTACCTTCTCATGAACGATGATCAAATCCACTGGTTTTCCATCATAAATTCACTTATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02140.t01 (Vitis vinifera), 3'ss of exon 6
gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
          | |   | ||    | || |   || ||  |||   ||| ||| | |   ||   |     ||||      | ||||||||||||| | ||||||||||| ||||||||||| ||||| ||  | ||||| ||||||||||||||||||||||||||||| |||||| |||||||||| |
---------gtaattctttttcgaaatccttgcttgtcttctc--ccatgatacggttttttttacttgtttttgccttattattttcagGAAAGTAACATCAAATGGGCTTCACGGTGGGATACATACCTCCTTATGAACGATGATCAGATCCACTGGTTCTCCATCATAAACTCTCTGATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: EDP05803 (Chlamydomonas reinhardtii), 3'ss of exon 5
---gt-attgctgattaaaatcttggctactcataaattttcacctca-----ttcattatatgatacgttaagccaaagtttgttggtatt--ttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
   || |  |   |   |      | ||   ||     | | | | |      || |    ||  |  | |   ||    |||| ||||       | ||||  || || |||   ||||| || || |||||||| || ||  | ||||  || || ||||| |||||||||||||||||||||||  |||||||||| |
gcggtgaccggaaacccatgctgggtctgagcactgggtctgagcgcgaggccttgaccgcatcctgggctgt-ccttgctttgctggtggcgacgtgcagGCTAGCGAGATCCGCTGGGCCTCGCGCTGGGACACCTACCTGCTGATGATGGACGACCAGATTCACTGGTTCTCCATCATTAACTCGGTGATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S24_182V6.1 (Physcomitrella patens), 3'ss of exon 6
----------gtattgctgat-taaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
          ||| |  |||| |   || ||  ||  ||  |       | |    ||| |  |||  | |  |||  || |||      |   | | |||   |||||  | || |||||||| |||||||||||||||||  | | | | ||||| |||||||| ||||| || ||||| || || |||||||||||||
tatgcgtaatgtagtagtgatctttgattttatcttttcccatgaagggatcgagctcacttgatgtca-gcgaaggtaatgttcacgttttcatgtgcagCTCAGTGAGGTGAAGTGGGCATCCCGGTGGGACACATATCTACTGACGCAAGATGACCAGATCCATTGGTTTTCAATCATCAATTCCTTGATGATTGTTC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S137_209V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------------------------------------------------------gtattgctgattaaaatcttggctactcataaattttcacctcattcattatatgatacgttaagccaa--agtttgttggtatttt----ttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
                                                                                                   |||  |  | | ||| |  ||||||  | || | | | |    ||||| || | | |   || ||||  | || | | |  || |    | ||||||||||| ||||| |||||||| || ||||| |||||| | || ||||  |||||||| || || |||||||||||  |||||||  | |||||||| |
gtgggtgattacttcagtacttccttttgctattacacaacttcgacaatcacttgaattgttatttgcctctcgtttcgggatttaagtcgtttgaagattttttgt-agaatgtcagctactagtcaagtgt-atcaagatcattcta-gcttctccaacccaagcacttggcttgctttgtgctgtgcagGAAAGTGACATCAAGTGGGCATCTCGCTGGGATACATATTTGTTGATGACAGATGATCAAATTCATTGGTTCTCCATTGTTAACTCCCTCATGATTGTCC

upper sequence: GLYMA07G01240.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S73_94V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------------------------------------------------------------gtattgctgatta-aaatcttg-gctactcataaattttcacctcattc----attatatgatacgttaagc-caaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
                                                                                                       | || ||  | |  ||| | ||   |  |||    |||  ||    |||    | | | |||| | ||| ||  |  ||| |          | ||| ||||||||||||| |||||||| || ||||| |||||| | || ||||  || || || ||||| ||||||||||||||||| ||  | |||||||| |
gtgaaatgagttctttaactcgcttttatgttactttacctcttaaaacctttttttttgttaaaaacttctccacttgtgaacagatgagggtatctcgtttggatcgcgaagtgtaaaccatgtattggtcaagtgtttcaactctgttcctcgactttctgat-ctttatgcatatggttcgcctcgtgcaatgcagAAAAGTGATATCAAGTGGGCATCTCGTTGGGATACATATTTATTGATGACAGACGACCAAATCCATTGGTTCTCCATCATTAATTCCCTCATGATTGTGC

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|193537291|gb|FK495376.1|FK495376
EST:     ATATCGTATTCACATATGATGTTTCCTTCAAG                         GAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAAT
genomic: ATATCGTATTCACATATGATGTTTCCTTCAAGgtattgctga ... attttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAAT
EST: gi|208286458|gb|GE086516.1|GE086516
EST:     GATATTGTATTCACATATGATGTTTCCTTCACG                         GAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAAT
genomic: GATATCGTATTCACATATGATGTTTCCTTCAAGgtattgctga ... attttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacctcattcattatatgatacgttaagccaaagtttgttggtattttttcagGAAAGTGATATCAAATGGGCATCACGGTGGGACACATATCTTTTAATGAATGATGATCAGATCCACTGGTTCTCCATCATTAACTCTTTGATGATTGTTC
                                            tattttttc  CT-rich tract
        attcattatatgata  TA-rich tract