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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag

Basic information

species Glycine max
transcript GLYMA14G40320.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag--
|||||| || || |||||  | || ||||| ||||||||||| || |||||||| |||||||| || ||||| || ||| | || |||||||||||||||||| |   || | ||  |     | |   ||| |    |   |||   ||| | |      |   |||  |   ||  |   | ||  ||  ||   |  | | ||   ||  
GTTCCAGGCTGAGGTGTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGACATTTTCCTGAGGGAGCTCATCTCCAATGCTTCTGATgtatgtagttgtattgcattttgactcccttttt----agggcct---attcagaac----acaggaaaaggaaaaacacaggata--ggaaaaacgtaggaatatgaaagga

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G399073_T03 (Zea mays), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgcttttttt--ttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
|||||| || || |||||  | || ||||| ||||||||||| || |||||||| ||||||||||||||||| || ||| | || |||||||| ||||||||| |   |  || |            |||| |   ||    ||  | | | |||| | |  | ||     |||     |                                 
GTTCCAGGCTGAGGTGTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCCAATGCCTCTGATgtatgtattgcttctgacccctgtgtttattctgcattgtggatggtcgaaattaactgtggtgttctgcatgtctgtag---------------------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G141931_T01 (Zea mays), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgcttttttt--ttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
||||||||| || || ||  | || ||||| ||||||||||| || |||||||| ||||||||||||||||| || ||| | || || ||||| ||||||||| |   |   | |            | || |   ||    || || | | |||| |   |  | || ||   || |                                   
GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtag----------------------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G022909_T01 (Zea mays), 5'ss of exon 4
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
||||||||| || || ||  | || ||||| ||||||||||| || |||||||| ||||||||||||||||| || ||| | || || ||||| ||||||||| |  ||   |  |    |    | | ||||||    | |        |  || ||   |  ||  |  |  |    | |||                           
GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAGCAACAAGGATATCTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtactacatact---gacccctgtgtttgttctgcattgtggatgctcgaaatt---aactgggtgttctacatgtctgtag-------------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G063988_T02 (Zea mays), 5'ss of exon 10
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
||||||||| || || ||  | || ||||| ||||||||||| || |||||||  ||||||||||||||||  || ||| | || || ||||| ||||||||| |   |   |  |    |    | | ||||||  | | |        |  || ||   | | |   |  || | | | |||                           
GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAACAACAAGGATATCTTCCCGAGGGAGCTCATATCTAATGCCTCTGATgtatgtattacatact---gacccctgtgtttgttctacattgtggatgctcgaaatta--actgggtgttctgcatg-tctgtag-------------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G110574_T01 (Zea mays), 5'ss of exon 7
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaa---aaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
||||||||| || || ||  | || ||||| ||||||||||| || |||||||  ||||||||||| ||||| || ||| | || || ||||| ||||||||| |   |   |  | |    |     | || |   ||    || || | | |||| |   |  | || ||   || |                                   
GTTCCAAGCTGAGGTTTCCAGACTCATGGACATCATCATCAACTCACTCTACAACAACAAGGATATTTTCCTGAGGGAGCTCATATCTAATGCCTCTGATgtatgtattacatactgaccctagtgtttgttctacattgtggatgctcgaaattaactaggtgttctgcatgtctgtag----------------------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatt-tgttaatggcgaataatgtgcacattctag
||||||||| || || || ||||||||||| || || ||||| ||||| |||||||||||||| || ||| | ||||||||||| |||||||||||||||||||||   ||  | |  |      || |    |||    || | | | || ||      ||   ||| |  | |  |  | ||||  ||      |               
GTTCCAAGCTGAGGTTTCTCGGCTTATGGACATTATTATCAACTCTCTATACAGTAACAAGGACATTTTCTTAAGAGAGTTGATCTCCAATGCTTCTGATgtaagcagcttcgtgtacattgttttagtgagtttttgggatacct-cgttaaa------taggggaactaataagtgtctgtgttggtgattttcag--------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
||| || || || ||||| ||||| ||||||||||| ||||| ||||| || || ||||| || || ||| | || |||||||| ||||||||||||||||||||   | ||||             ||| | | ||  || | ||   | | || || ||| || ||| ||    |   ||| |    |                     
GTTTCAGGCTGAGGTGTCTCGGCTCATGGATATCATTATCAACTCTCTTTATAGCAACAAAGACATTTTCTTAAGGGAGTTGATCTCCAATGCTTCTGATgtaagtattatttt------------gtttgtttctaggaa-ctttctttctgaagttgttactt-aatggtaattctgcttgatttcag---------------------

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: PP1S126_38V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag-
||||||||| ||||| ||  || | ||||||||||||||| | ||| | || || ||||| || ||||||||  | || ||||| ||||||||||||||||||||       ||| |    ||   | |          | | ||    | | ||||  |||| |   |  |   | | ||| ||||   | |  ||| |    ||    | 
GTTCCAAGCTGAAGTCTCAAGGTTGATGGATATCATCATCCACTCTTTGTATAGCAACAAAGACATCTTCCTTCGCGAATTGATCTCCAATGCTTCTGATgtaagttgcaaatttctccgcaagccaat---------gacttctcaattcttaattaattatatatctcatcaca-gttttattaacttcca--aatttatctatcggtgg

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 3
lower sequence: PP1S8_67V6.1 (Physcomitrella patens), 5'ss of exon 4
GTTCCAAGCGGAAGTGTCGCGGCTTATGGATATCATCATCAATTCTCTCTACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctttttttttaaaaaaaatatttttgtttaaaaatccttgcatttaaattttttatttgaattgttgaacgatttgttaatggcgaataatgtgcacattctag
 ||||| || || || ||  |||| ||||||||||||||||| || || ||||| ||||||||||| || || || ||  || | |||||||| |||||||||||   | |    || | ||     || || ||  ||  |   |     | |    |   |   | | ||||   |||||     | |  | |||| |    | ||   
ATTCCAGGCAGAGGTTTCAAGGCTGATGGATATCATCATCAACTCCCTGTACAGCAACAAGGATATTTTTCTGAGGGAACTGGTGTCCAATGCCTCTGATgtaagatatctcgccttcataa-----ttgttcttctaaggtttctaagaatcaggagtcactcccagtggttgtcggattt--cggttgt-attaatttctctactc---

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|193549037|gb|FK507866.1|FK507866
EST:     ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAT                         GCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA
genomic: ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctt ... cacattctagGCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA
EST: gi|193513896|gb|FK466502.1|FK466502
EST:     ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAT                         GCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA
genomic: ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctt ... cacattctagGCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA
EST: gi|193681953|gb|FK622561.1|FK622561
EST:     ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGAT                         GCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA
genomic: ACAGTAACAAGGATATCTTCCTCAGAGAGTTGATTTCCAATGCTTCTGATgtaagcgctt ... cacattctagGCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGA