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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA

Basic information

species Glycine max
transcript GLYMA15G01680.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 7
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatgg-atgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                ||  ||  ||||||  ||| | | |    | ||   |  |||   | ||   ||   ||| ||||  ||    |   ||| ||||| |||||||| || || || || ||||| ||||| || ||||| || ||||||||  | |||||||| || || |||||||| ||||||||||||||||
--------------gttttttttttctatccactt-ttgagtgttc-caagtatccacgattctgtgcagtcctaagatggtgtggtcatggtgaaccagGTCTGGGATTACCAAACGAAGAGCTGTGTTCAGACACTTGAAGGACATACACACAACATTTCTGCTGTTTGTTTCCATCCTGAGCTTCCTATAATCATTA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
       |   ||||  | || |  || | || ||   | |          |  |  ||    | |   ||  |    |         |  | ||  |||| |||||||| ||||| || || ||||| ||||| || ||||| || ||||| ||| | |||||||| || || |||||||| || |||||||||||||
------gtacaattttgtactcag-ctgtatgttttgagtgtttgattgttc-tatccagtcctaaggtggtgtgcttta--------tggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
            |   ||  |  |   |  ||  |||   | |          | |  ||| |  |  | || |     |  | |   |  | ||  |||| |||||||| ||||| ||||| ||||| ||||| || ||||| || ||||| ||  | |||||||| || || |||||||| || |||||||||||||
-----------gtacatttttgtactgaggtgtatgttctgaattttttgttgctc-tatgcagtattatga-tggtgcgtttta---tggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 8
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                               |  || |  |  ||    |||| |      | |   |    || || ||  ||        |||| |||| ||||||||||| || || || ||||| || || || ||||| ||  |||| ||||| ||||||||||| || |||||||| ||||| ||||| || |
-------------------------------gtatgacatgttcatttgcacatatgagcattttggacattatgac-tgattggttaacttgaattagGTTTGGGATTATCAAACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTCTCTGCTGTATGTTTCCATCCTGAGCTTCCAATAATAATGA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 7
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
|| |  || |  ||        ||| | | |||||     |    | |  | |   |  | | || | |    | ||  |  ||  ||||     |||||||||||| ||||| |||||||||||||||||||| ||||| || |||||||||||||| ||||| ||||| || ||||| || ||||| ||||| || |
gtatgcttctggttaagcttccaatatctgtgctt----tgattcccctgagaattatgtatttgcagatcgtttactag--tggtactttt---tcagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACACACAATGTTTCTGCCGTATGTTTCCATCCAGAGCTTCCAATAATAATCA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------------------------gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatga------aaaggaataacatggatgaaacttac---gaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                                  ||||  |    || |||   |  || ||||| | | |         | | | |    | || | |           | |||   |  || ||  |      ||| ||||| |||||||| || || || ||||| || ||||| || |||||||| ||||||||||| ||||| ||||  |||||||| || || |||||||| ||||
gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgtatgtatctccatttgtattgtttgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 7
----gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
    |  |  | |||| | ||   ||| |  ||    || |   | |||           |  ||  |  |    | | || | | ||||  |   ||||||||| ||||| || || || ||||||||||| |||||||| || || |||||||||||||||||||| ||||| || ||||| || ||||| || || || |
gtatgcctcctgttcaatggtcttttagttgatacatttctactggacat---------tatgtgctttcaggttatttac-tagttgaatttcgtgaatcagGTCTGGGACTACCAAACAAAAAGTTGTGTACAGACCCTGGAGGGGCACACACACAATGTATCTGCAGTATGTTTCCATCCAGAGCTTCCAATTATAATCA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 7
gttttgttttcatttgttgctta-atctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataa-catggatgaaacttacgaat-cagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
            | ||  | | | |  ||| | |  |  | |   | | |   |  |   |  ||  || | |||   ||||||  || | | | ||| ||||| ||||| ||||| |||||||||||||||||||| || ||||| |||||||||||||| ||||| || ||||| |||||||||||||| ||||| || |
-----------gtctgccgttgataattattttcaagctgtgttta-gtatttatgcggtttgatagaaggaaatgttcatggacaaatcctccaaatgcagGTGTGGGACTATCAAACCAAAAGTTGTGTCCAGACACTGGAAGGCCACACACACAATGTTTCTGCAGTCTGCTTCCATCCTGAACTTCCCATAATAATAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaactta-cgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
     || || || || ||||||   |  ||   |  |   ||        ||  |      ||   |     |    ||  | ||  ||   | | ||||| ||||| || || |||||||||||||| ||||| |||||||| |||||||||||||| ||| | || || || ||||| || |||||||| ||  |||
-----gtgtttatctgatgctta--ttgactaaatagcttccatttatgtgcattc-----catttgattactttctgtgattaaattttggtggaacagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTA

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|208112800|gb|GD908759.1|GD908759
EST:     GTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAG                         GTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACA
genomic: GTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAGgttttgtttt ... tacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                                         aacttac  putative branch site (score: 2)
                 tatgaaaa  TA-rich tract