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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tgtaaatgtctttaatttgattcattcctgttgttgcattgcaagttccttcttttttgcttcaatgatcacgtgttgtgtccttttctgttgttggggttggtgttaagtgagttcggattcctgggtaatcagaaagttttgtttttgtttttcttcttctgggtggctgacatcaaggttgttgctaGGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGATTCTGATGTTCTTATTGAGTGTAGAGACGTGTACAAGTCTTTTGGGGAA

Basic information

species Glycine max
transcript GLYMA18G47600.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47600.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G65410.1 (Arabidopsis thaliana), 3'ss of exon 1
tgtaaatgtctttaatttgattcattcctgttgttgcattgcaagttccttcttttttgcttcaatgatcacgtgttgtgtccttttctgttgttggggttggtgttaagtgagttcggattcctgggtaatcagaaagttttgtttttgtttttcttcttctgggtggctgacatcaaggttgttgctaGGGTTCGTCCAAATCAGAGCAAT---TGAGCACTGCGCGGGATCATGAGGATGATTCTGATGTTCTTATTGAGTGTAGAGACGTGTACAAGTCTTTTGGGGAA
                                      |   ||  ||    |||  | |||| |   | |     ||  ||         ||| |    |||  |||| | |      | | |||  || |   |   ||||| ||     ||  ||  |    |||  ||| |||     | |    || ||    |||| || |    |    || | |  | ||| |  | |||| |||||||||||||||||||||| |||||||| || || || || |||||||  
-------------------------------------gtaataatctcacgatttgcttcttctaaagtaattaaatggatc-------actgtggaatctggacttaaataa------agtactga-tattggtatcattttggttgcaacttgtttgata-atgtga-tgatatctca--tatctgcagAGTCTTACCAAGTCTGGAGGAGGTATGTGTAAAGAGCGAGGGCTTGAGAATGATTCTGATGTTCTTATTGAATGTAGAGATGTCTATAAATCGTTTGGGG--

upper sequence: GLYMA18G47600.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 1
tgtaaatgtctttaatttgattcattcctgttgttgcattgcaagttccttcttttttgcttcaatgatcacgtgttgtgtccttttctgttgttggggttggtgttaagtgagttcggattcctgggtaatcagaaagttttgtttttgtttttcttcttctgggtggctgacatcaaggttgttgctaGGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGATTCTGATGTTCTTATTGAGTGTAGAGACGTGTACAAGTCTTTTGGGGAA-
                |  | |||||| |||| |||  |      || | | |||||   ||  ||| |    | | ||   ||  | | || ||    ||    ||   |   ||  | ||  ||   |||   |    |||||| |  |||   ||||                      | ||  |||| ||| ||  |   | || |    ||   ||   | || | |||||||||||||||||||||| ||||||||||||| ||||| ||||| ||||||||  
---------------gtaaaatcattcttgtttttggct------tttcgtttttttgttttatatggttttctttggttagctcgttttttttt----tttccattggattctttttgttttttgaagaataccatgaatttgttctcatttgggttct---------------------ctcttattagGATTCATCTCATCTAAAGAATCCAAGTGTTGATGGAGACCGTGAGGATGATTCTGATGTTCTTGTTGAGTGTAGAGATGTGTATAAGTCATTTGGGGAGA
















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|13480728|gb|BG510071.1|BG510071
EST:     GCTCCTCCTCAAAACTTCAAGAGCCAGGACTCTTCCGCCATTCATTTCAA                         TGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGA
genomic: GCTCCTCCTCAAAACTTCAAGAGCCAGGACTCTTCCGCCATTCATTTCAAtgtaaatgtc ... gttgttgctaGGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGA
EST: gi|17023590|gb|BM094624.1|BM094624
EST:     GCTCCTCCTCAAAACTTCAAGAGCCAGGACTCTTCCGCCATTCATTTCAA                         TGGTTCGTCCAAATCAGAGCAATTGATTATTGCGCGGGATCATGAGGATGA
genomic: GCTCCTCCTCAAAACTTCAAGAGCCAGGACTCTTCCGCCATTCATTTCAAtgtaaatgtc ... gttgttgctaGGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagttttgtttttgtttttcttcttctgggtggctgacatcaaggttgttgctaGGGTTCGTCCAAATCAGAGCAATTGAGCACTGCGCGGGATCATGAGGATGATTCTGATGTTCTTATTGAGTGTAGAGACGTGTACAAGTCTTTTGGGGAA
                                ggctgac  putative branch site (score: 3)
     tttgtttttgttttt  TA-rich tract