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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgcccttaattatcctttattcgagataattgactagttatggaaatctaacttaaacttcctctgtgcagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTTAGAGAGTGATGGCATTGATGATGTTACCCTTCTTGTGAATTCCTCACCT

Basic information

species Glycine max
transcript GLYMA04G09000.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G09000.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G32880.1 (Arabidopsis thaliana), 3'ss of exon 11
----------gtttgtgcccttaattatcctttattcgagataattgactagttatggaaatctaacttaaacttcctctgtg-cagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTTAGAGAGTGATGGCATTGATGATGTTACCCTTCTTGTGAATTCCTCACCT
           ||    | ||| |  | |  || |   | |  |||   |   |    ||| ||||  |    ||  |   || ||| || || || ||||| || ||||||||    ||||| || ||||||||  ||||||||||||| || |||||||| || ||||||||||| ||||| || 
gtaattagagcttctcacacttcaaaaacacttttaaaaaaacattacgt--cttctaaaacctaaaattgtttttgttaatgtcagAGGATTCAACGAAGCAGTGAATGGGTTCAGCGATGAAGGATGGTCCATCCTAGAGAGTGATGGTATCGATGATGTCACTCTTCTTGTGAACTCCTCTCCC

upper sequence: GLYMA04G09000.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g03250.t01 (Vitis vinifera), 3'ss of exon 10
----gtttgtgcccttaattatcct-ttattcgagataattgactagttatggaaatct--aacttaaacttcctctgt---gcagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTTAGAGAGTGATGGCATTGATGATGTTACCCTTCTTGTGAATTCCTCACCT
    ||||||  | ||| | |   | ||  | ||     || | |  |  |||| || |  || |   || |  | | |   ||||||| |||||||||||||| ||||||||| | ||||| || ||||| ||| | || |||||||| |||||||||||||||||||||||||| ||||| |||
gtgagtttgtttcattattgaaattgttcctagaagctgttaaattttcttggatatttggaaatctgacatattttatcatgcagGGGTTTTAATGAAGCTGTTAATGGGTTTACGGATGAAGGATGGTCTATGATGGAAAGTGATGGTATTGATGATGTTACCCTTCTTGTGAACTCCTCTCCT

upper sequence: GLYMA04G09000.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S188_95V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------------------------------------gtttgtgcccttaattatcctttattcgagataattgactagt-tatggaaatctaacttaaacttcctctgtgcagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTTAGAGAGTGATGGCATTGATGATGTTACCCTTCTTGTGAATTCCTCACCT
                                              | |||   | | | |   |    | | |||   ||     | | | |||||   | ||      | |  |||||||||||| ||||| ||||||||||| |||| |||||||||||||   |    ||  |  |||||  | ||||| ||||   |  | || ||| |  | || 
gtgagttctgccttcagaggataattttttgtcttttgactagaaatggtgaggtcattgagattactgtggtgatctctggtgcttctgtagaaataagagttttctcccattggtgcagGGGCTTCAATGATGCTGTCAATGGATTTGGAGATGATGGCTGGGAGACTACAGTAACCGATGGTCTGGATGACGTTAGTGTGATGGTCAATGCAACCCCC

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|193388169|gb|FK353880.1|FK353880
EST:     TGGGGAAGAAGGCCTGCAGCTCTACGTGCGCTGAGCCAGAGATTGAGCAA                         GGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTT
genomic: TGGGGAAGAAGGCCTGCAGCTCTACGTGCGCTGAGCCAGAGATTGAGCAAgtttgtgccc ... ctctgtgcagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattcgagataattgactagttatggaaatctaacttaaacttcctctgtgcagGGGCTTTAATGAAGCTGTCAATGGGTTTGCAGATGATGGCTGGTCCATGTTAGAGAGTGATGGCATTGATGATGTTACCCTTCTTGTGAATTCCTCACCT
                             atctaac  putative branch site (score: 2)
                                         cttcctctgt  putative PPT
                           aaatctaacttaaa  TA-rich tract