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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatacatctcctccttctttaactactcactcttttttgtcttttttactctattctgcactgtagattcaattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAG

Basic information

species Glycine max
transcript GLYMA07G38920.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G21790.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------gtacatacatctcctccttctttaactactcactct----tttttgtcttttttactcta------ttctgcactgtagattcaattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAG
                      |   ||  |    ||    ||||  || |     |    ||| || | ||||   |  |      || ||    |||| ||||| || | || ||  || | ||||| ||||||||||| |||||||| |||||  | |||||||| ||||||||  | ||||| ||||
ttgtatagtttgattgattgtttctgtagtttatttctgggtttagttagttgtgttgcaatttctgaccttttgtttgaaatgggattatgattggtagGTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG

upper sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s2255g00010.t01 (Vitis vinifera), 3'ss of exon 1
---------------------gtacatacatct---cctccttctttaacta-ctcactcttttttgtctttt----ttactctattctgcactgt--agattcaattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAG
                      |   |  |  |   | |  || || |   | || |   | |   ||    |    || |  |  | |||||||   |||||||| || | || |||||| | ||||| || |||||||| ||||| ||||||||  |||| ||||| ||||||||||| ||||| ||||
gaattgtttttcactgccgtgatttgtggagttgagcttgattgttgagaaatcttatgttgtgcggttgactaagatttcattgatgtgcactgcgcagATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAG

upper sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 1
---------------------gtacatacatct---cctccttctttaacta-ctcactcttttttgtctttt----ttactctattctgcactgt--agattcaattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAG
                      |   |  |  |   | |  || || |   | || |   | |   ||    |    || |  |  | |||||||   |||||||| || | || |||||| | ||||| || |||||||| ||||| ||||||||  |||| ||||| ||||||||||| ||||| ||||
gaattgtttttcactgtcgtgatttgtggagttgagcttgattgttgagaaatcttatgttgtgcggttgactaagatttcattgatgtgcactgcgcagATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAG

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|26268856|gb|CA819919.1|CA819919
EST:     TCCATCGCTTTG                         AATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCA
genomic: TCCATCGCTTTGgtacatacat ... aattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcactcttttttgtcttttttactctattctgcactgtagattcaattggtcagAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAG
 tactcac  putative branch site (score: 1)
       ttttttgtctttttta  TA-rich tract