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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaataattcatttatataaaaagtcgatgataaattgcatgtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG

Basic information

species Glycine max
transcript GLYMA11G08380.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 3'ss of exon 3
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaataattcatttatataaaaagtcgatgataaattgcatgtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                 | | |||  |   ||   ||          | | ||| ||   | |  |||| ||       | || ||||   |    | | ||||   |   |  | ||  || | ||||||||||| || ||| |||||||||||||||||||||| || || || || || || ||||||||||
-----------------------------------------------------------------ttatgttgatacttgatttg----atcatttttgtggctcgattcacttttttagtc-----tccacttatggtacttcttgttgat---tctaaactttg--ttatatttcagTGGATACCTGAGCTGAAGCATTATGCACCTGGTGTGCCTATCATCCTTGTGGGAACAAAGCTTG

upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 3
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaat-aattcatttatataaaaagtcgatgataaattgcatgt---ctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                                   ||||  |||  |  | |  |  ||   || ||| || |  || |||  |  |   |   ||     |  |    ||  | |   |   ||   |||||||||||| || ||  |||||||||||||||||||||| || |||||||| || || ||||||||||
----------------------------------------------------------------------------------gtgtactgaaacagttctccaaaat-ccatttttgaataggattaatatagatggctcccaaactttttgtttgctgactctgaaccccttctattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATTATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G803949_T02 (Zea mays), 3'ss of exon 3
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaat-aattcatttata---taaaaagtcgatgataaattgcat--gtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                                    ||    |  |||||    |  ||   || ||| || |  || ||| |||  ||    |  ||| |   || |   |  |      |   |||  |||||||||||| || ||  |||||||||||||||||||||| || || ||||| || || ||||||||||
-----------------------------------------------------------------------------------agtggaaactgatgtccaaa--atcaaatttttgaataggattaatccatagatggcttccaaacttcttgtttgctgactctgaaccccttttattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATAATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaataattcatttatataaaaagtcgatgat---aaattgcatgtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                                                           || |  |||      ||    ||   ||| ||| || |    | |   || ||  |||  |  |||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||| | || ||||| || || || |
-----------------------------------------------------------------------------------------------------------gtca-gtttcgtccgaactggtcgactatttaacaattgagagttccaaattttgatgcttcttttcttttacagTGGATTCCTGAGTTGAAGCACTATGCTCCTGGTGTCCCAATTGTCCTTGTTGGAACCAAACTAG

upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 4
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatattttaagaaaataattcatttatataaaaagtcgatgataaattgca-tgtctggtttc--tttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                           ||| |   |  ||  | | |||| ||   || |     |||| | |  |  | || |  | | |     | | |  | | ||    ||  |  | |   |||| |||||||| |||||| ||||||||||||| ||||||||||| ||  |||| ||||| || || || |
---------------------------------------------------------------------------gtacgtttttgaa--atgaatgtttgctacaag-----ttttgatatgaatactc-tgaagaaagtcttttggttgtgatttttgctgctttatcttcgttttgcagTGGATCCCAGAGCTGAAGCATTATGCCCCTGGTGTCCCTATAGTTCTTGTTGGAACCAAACTAG

upper sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 3'ss of exon 4
gtacttcgttgcaatttattgtggtcagagtgttttgggagaattcttatttcttttgagaatcatgaggtttctgtatggcctgtaacgaaggatgtatggatcatgttatat---tttaagaaaataattcatttatataaaaagtcgatgataaattgcatgtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                        |||| | | ||| |  ||   |||   ||  |  |    |   ||  | | |  |||    ||| |||    |||| ||| || |      | |  |||   ||     |  || ||| |||||||||||||||||| ||||||||||||||||||||||| || ||  |||| |||||||| |||||||
-------------------------------------------------------gtgagga-cttgatggatcaaaatgaagtgatagcactttttagtgagtaaaggaataccaattttagatggcaatttatt-atgtc----ctgggagattttttaatgtttcggcttcattttcagTGGATTCCAGAATTGAAGCATTATGCACCTGGTGTTCCGATAGTTCTTGTTGGCACTAAGCTTG

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|192304826|gb|FG997036.1|FG997036
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
EST: gi|5606072|gb|AI900170.1|AI900170
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
EST: gi|31309917|gb|CD395120.1|CD395120
EST:     CTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
genomic: CTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
EST: gi|58017044|gb|CX703786.1|CX703786
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
EST: gi|19054119|gb|BM732786.1|BM732786
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
EST: gi|58016803|gb|CX703545.1|CX703545
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtt ... tctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattcatttatataaaaagtcgatgataaattgcatgtctggtttctttttcagTGGATTCCAGAGTTGAAGCATTATGCACCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                      tctggtttctttttc  CT-rich tract
      atttatataaaaagtc  TA-rich tract