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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggggctggggaaggatcctagtgtccagtggagggaatgagatgtgtttttttattgaagaggtttcttatcattgaatctaattgtgttttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGTTTTCCAGTCCTTGTGTTGTGGGGCATGAGATTACCGGTGAGGTTGTTGA

Basic information

species Glycine max
transcript GLYMA05G33140.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os08g01760.1 (Oryza sativa), 3'ss of exon 1
-gggggctggggaaggatcctagtgtccagtggagggaatgagatgtgtttttttattgaagaggtttcttatcattgaatctaattgtgtt----ttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGTTTTCCAGTCCTTGTGTTGTGGGGCATGAGATTACCGGTGAGGTTGTTGA
   |       | ||    |||  |||   ||            | ||||| ||| ||   |     ||  || |||||  || |   ||      |  ||| ||| |||||||| |||||||| ||||| |||||| | || |||||  | || || ||||| || || ||||| ||||||||||| || || |||||||||||
gtcgcatcattgcagccatctatcgtctgctgctcctgcgtttctttgtttctttgttt--gtttcctcgaattattgaggctgacgctggcccaatctgtgcagCTTGTGGAGTTTGCCACTCCGATCTCCATGTTCTCAAGGGTGAGCTCCCATTCTCCAGCCCCTGCGTTGTTGGGCATGAGATCACTGGGGAGGTTGTTGA

upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G63620.2 (Arabidopsis thaliana), 3'ss of exon 1
gggggctggggaaggatcctagtgtccagtggagggaatgagatgtgtttttttattgaagaggtttcttatcattgaatctaattgtgttttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGTTTTCCAGTCCTTGTGTTGTGGGGCATGAGATTACCGGTGAGGTTGTTGA
                || |  | | | | |    || |||      || |   |||  ||   |||   |   | | ||  | ||  ||||  | | ||| |||||||| |||||||||||||| ||||| |||||||| || || |||||  | |||||||||||| | || ||||||||||| ||||| ||||||||
-----------gttcttcttcattttctgggatttgattgaatcaatttgtaggattcgag---ttttgaaagttagtattcattttcgtttgtgggcagCTTGTGGAGTTTGCCACTCTGATCTTCATGTGATGAAAGGAGAGATACCGTTCGCTAGTCCTTGTGTTATTGGTCATGAGATTACTGGTGAAGTTGTTGA

upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 1
gggggctggggaaggatcctagtgtccagtggagggaatgagatgtg---tttttttat-tgaagaggtttcttatcattgaatctaattgtgttttgg-------tgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGTTTTCCAGTCCTTGTGTTGTGGGGCATGAGATTACCGGTGAGGTTGTTGA
           |||||  | ||| |  |   | |||| |    | |    || || ||| |||| |        | || |||  ||   ||  ||||||       || ||||||||||||||| ||||||||||| |||||||| ||||| ||| |||| ||| | || |||||||| |||||||| ||||| || ||||||||||||||
----------aaaggaatc-agtctttatatgcgggattctcttttcctcttcttctatctgaaaaaagcctagaacaatgacactggctgaattttggaattaaatgcagCCTGTGGAGTATGTCACTCTGATCTGCATGTTATCAAAGGAGAACTTCCATTTGCTAGCCCTTGTGTGGTGGGGCACGAGATAACGGGTGAGGTTGTTGA

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|5753618|gb|AI960905.1|AI960905
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|14258428|gb|BG881336.1|BG881336
EST:     TTTCACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAA-CAAAGG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCG
genomic: TTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAA-Ggtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCG
EST: gi|209704779|gb|BW673431.1|BW673431
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|213608120|gb|DB970801.1|DB970801
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|9203970|gb|BE330194.1|BE330194
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|298166732|gb|HO010171.1|HO010171
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|298164571|gb|HO014216.1|HO014216
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|151395988|gb|EV265865.1|EV265865
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
EST: gi|209717619|gb|BW679699.1|BW679699
EST:     ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAG                         CCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT
genomic: ATTTAACATGCCTCGCCCCAAGGCCGGTGAAGTTCTCATCAAAACCAAAGgtaagggtac ... tttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttttattgaagaggtttcttatcattgaatctaattgtgttttggtgtagCCTGTGGAGTATGCCACTCTGATCTACATGTTATGAAAGGTGAAATTCCGTTTTCCAGTCCTTGTGTTGTGGGGCATGAGATTACCGGTGAGGTTGTTGA
                                 atctaat  putative branch site (score: 3)
     ttttattgaa  TA-rich tract