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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttttctgcactagttttttgtttttcttttggctagttttgttgttgtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG

Basic information

species Glycine max
transcript GLYMA07G18160.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 3
gtgtttttctgcactagttttttgtttttcttttggctagttt-tgttgttgtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
         ||     || ||| ||| | | |||  |   ||| ||      | || | ||    ||| |    |              |  |||  |||||  | |   |||||| | || |   ||||     ||   ||  | | ||| ||||| |||||| ||||||| || |||||||| ||||| ||| |||| |||||||||||||
--------ttgtgt--gtctttggttctccattttccggctttatgcaacaattagggctacagatttggtgactagatggaactgacctcccccatattgtgttta---cagTGTGCGGCTTCTACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTG

upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 1
gtgtttttctgcactagttttttgtttttcttttggctagttttgttgttgtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
      ||   || || |  || ||| |    ||  | | |||             |   | |  |||| ||   ||  ||     |     |    ||||  |     |||||| | || |   ||||     ||   ||  | | ||| ||||| |||||| ||||||| || |||||||| ||||| ||| |||| |||||||||||||
------tttgtcagta-tccttagttctctacttccccactttatccaacaattaggcctagagatttgttg--actagttgcaactgacctctgtcttgtgttt---tcagTGTGCGGCTTCTACTGCACCGGCTAACTCGCAAACAACTTGGACAATGCGTGCTACCTTCCCTGAATATGTGGTTGCTCTTACTACAATTGTTGGATCTG

upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtttttctgcactagttttttgtttttcttttggctagttttgttgtt-gtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
|| | |||   | || |  | | |  ||    || | |  || | |  |  ||||   ||    |      | |      ||  | | ||     |  | |   ||||  ||||| ||||||||  | |||| |||  |||| |||||||||||||| ||||||||||| |||||||||||||||||||| ||||| || |||||||| || |
gtatgtttgc-ctcttgaatgtagcattagcattagttt-ttatatcatgagtcatttatgccgtagagagtttcagcatttaacatattcctgtctctggctatcaatgcagTGCTCAGCATTTACAGCTAATCCCACATCTGAGAAAACATGGACTATGCGTACTACTTTTCCAGAATATGTTGTTGCTCTTGCGACAATTGTTGGGTCAG

upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtttttctgcactagttttttgtttttcttttggctagttttgttgttg----tcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaac--cagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
||  |  | |  | |  | ||   || || || ||  |  || | | |||       |   | ||||| |||     ||   | | || | | ||| ||        |  | |  ||||| |||||||   | |||| | || | || || || |||||| ||||||||||||| |||||||||||||||||||| |||||||| || ||||| || |
gtaatactttaaattt-tcttgcattcttgttatgagtttttctttcgttagtctctatgcaaaatatatttcagtatgtaaaatatcttctcttctccttggtatattgatcggcagTGCTCAGCATATACAGCTAATGCTGCGTCTGAAAAGACATGGTCCATGCGTACTACGTTTCCAGAATATGTTGTTGCTCTTGCTACAATCGTTGGGTCAG

upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------gtgtttttctgcactagttttttgtttttcttttggctagttttgttgttgtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
                                                         |||||| ||    || || |||  ||||||      | | ||| | |          ||      | |   |     |    | | ||     |   ||     ||||| || ||||  ||||| ||| ||||||| |||||||||||||| ||||| ||||| |||||||||||||||||||| |||||||| ||||| |||||||
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG

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|21678030|gb|BQ630381.1|BQ630381
EST:     CATGGACATTCAGTAGTGGTCAACCTTGTATTGGAAGTGATGCCCATCAG                         TGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGT
genomic: CATGGACATTCAGTAGTGGTCAACCTTGTATTGGAAGTGATGCCCATCAGgtgtttttct ... ctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGT
EST: gi|254348008|gb|GR854257.1|GR854257
EST:     CATGGACATTCAGTAGTGGTCAACCTTGTATTGGAAGTGATGCCCATCAG                         TGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGT
genomic: CATGGACATTCAGTAGTGGTCAACCTTGTATTGGAAGTGATGCCCATCAGgtgtttttct ... ctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG
            ctgttgctcattctcc  CT-rich tract
     attttt  TA-rich tract