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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagattgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG

Basic information

species Glycine max
transcript GLYMA08G00380.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 6
gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagat-tgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
                                  ||| | | ||  || ||  | |   |  ||   || |  |  ||  | |||| ||  |   |  || |    |||   |||     | ||     | |  |     |   |||     ||||||  | || |    |  || |      ||| |     |||||||||||| ||| |||| |||||||| |||||  ||||||||||||| |||||  || |||| |||||||| ||| |||||
---------------------------------gtataattctaccatctgagttt-tttagtttgttaaa--tggcagattattctattttagtacgtgtaatcaaacttattattgctaagga----agaggttgttcacgttatggcacaatcatgaggataaccagactatct------ttgct-----tcagATTGTAAGGTTCAAAGACAAAGAGTCCCATCAGGTATTTCTTGAACCAGAGGGCAGAGATGTTCCTGAGCTTTATCTGCAG

upper sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G481548_T01 (Zea mays), 3'ss of exon 6
gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagattgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
                                          |||| | |  ||| ||||  ||   |   ||||| ||  ||  |     | |  ||||   |         |  | ||   || |      |   | ||| |  | |   || |  |  |     | |||     |   |   ||   || ||||||||||| ||| ||||||||||||||||||| || |||||||||||||||||| ||||||| ||||| || ||| | |||
-----------------------------------------gtaatgtata-atggaccttgttggttt--gttac-atggcaaacttcttttattttgattattggattgccaacagaacttgtattttttcttgcaaaaaattaagtactat-acctacaacgactgatgtacccactaacccttg--ttgcagATTGTAAGGTTCAAAGATAAAGAGTCTCATCAGATCTTTCTTGAACCTGAGGGTAGAAATGTTCCTGAACTATATCTACAG

upper sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G13440.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagattgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattatttt--atga---tgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
                                                                                                ||| |  ||   | |||   | |   ||    ||  || || | ||| || ||       |||  | |  |||  ||||   |   | || |||||   ||||||||||| || ||| |||| |||||||||||||||||||| || ||||| ||||| ||| |||| |||||| |||||||||||
-----------------------------------------------------------------------------------------------cttgcatttg---ctttttctacagttggcacaaagaataagttgaaccatcttt---ctctttaaactgcttttgatgaacttaaaaaatcttgtttggtttcagATTGTTAGGTTCAAAGACAAAGAGTCTCATCAAATATTCCTCGAACCAGAGGGCCGAGATGTTCCTGAGATCTATGTGCAG

upper sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagattgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
                                                                                              | ||  |    |    |  ||| | | |  | |   |  | |     | || |    |||  | || | | ||  |  || |  | | ||| |   ||||||||||| ||||| |||||||||||||||||||| || ||||||||||| || ||||||||||||||||||||||||||||||
--------------------------------------------------------------------------------------------tggtttataat--atttgtcaagagagatgcattttttatttaactatgattacaagaaaatt-tctgaactgttcaaacatttttttttttggtgg-tttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG

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|5687882|gb|AI940861.1|AI940861
EST:     GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAG                         ATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG
genomic: GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAGgtgtgtttca ... tcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG
EST: gi|193343830|gb|FK313186.1|FK313186
EST:     GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAG                         ATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG
genomic: GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAGgtgtgtttca ... tcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG
EST: gi|16996254|gb|BM085626.1|BM085626
EST:     GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAG                         ATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG
genomic: GATGGGTTGAAGCCAAAGGACCTAGATACTGTCCCTCAATAGAAGATAAGgtgtgtttca ... tcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
                                            ttcactttc  CT-rich tract
              atttgtattattttat  TA-rich tract