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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcctcctaaaaatatctctatcttattatctctctacattcagaagtaactgaatagagtttcggtaggttatgttttaggggagctttaaata...

Basic information

species Arabidopsis thaliana
transcript AT1G08110.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08110.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g22970.1 (Oryza sativa), 5'ss of exon 6
CAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcctcctaaaaatatctctatcttat-------tatctctctacattcagaagtaactgaatagagtttcggta----ggttatgttttagggga-gctttaaata-------------------------
||||||||| ||||| | ||||||||| || |||||||| || ||||||||||| || |||||||| |||||||    |      ||   || |  |  | ||         ||| | |  ||    |  | |||  |||   | | | |       | |  | ||||  || ||   |  |                          
CAACTGGGGCACAGAAAATGATCCTGAATTCAAAGGTTACCATAATGGGAACTCAGACCCTCGTGGTTTTGgtatgtgcaatgagaattcatatgcaattgatatgatcgcttctttttctatcattatatgacttgatatcttcttgttgccataataacctcttagctgatgcaacacttgtattttcttcattctgttcattcag

upper sequence: AT1G08110.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G125310_T01 (Zea mays), 5'ss of exon 6
CAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcctcctaaaaatatctctatctta------ttatctctctacattcagaagtaactgaatagagtttcggtaggttatgttttaggggagctttaaata--------------------------------------------
||||||||| || || | ||| ||||| || |||||||| || ||||||||||| || |||||||| |||||||    | |    ||  ||| |  |  | |      | |    |     ||| ||| | | |    | |||||||||    || | | ||    |   | ||| |                                            
CAACTGGGGCACGGAAAATGACCCTGAATTCAAAGGTTACCATAATGGGAACTCAGACCCTCGTGGTTTTGgtatgtgctttgacaatttatgttcaattgaaatgactgacagtttctgtttccgaaatca-taggcatagtttcggtgctgtaagatatatataattgtgaaacacatattgctctaacgcttgtatttgctcacttttgttcattcag

upper sequence: AT1G08110.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G08470.1 (Glycine max), 5'ss of exon 6
CAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcctcctaaaaatatctctatcttattatctctctacattcagaagtaactgaatagagtttcggtaggttatgttttaggggagctttaaata-------
 || |||||||| || |||||||||||||| ||||| || |||||||| || ||||| |||||||| |||||||         | |    || |  |  ||  ||    | |  | ||  || |   ||| || |||||  ||  |||||    ||         | |||        
TAATTGGGGTACTGAAAGTGATCCTGAGTTCAAAGGCTACCACAATGGCAATTCTGAACCTCGTGGCTTTGgtatgtgatatttcatttcattt--aatttggtacaggttttgactctaaact---tgattacagtttgagtttgttat--cctaaatatatgctgaatcactgacc

upper sequence: AT1G08110.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0061g00460.t01 (Vitis vinifera), 5'ss of exon 6
CAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcctcctaaaaatatctctatcttattatctctctacattcagaagtaactgaatagagtttcggtaggttatgttttaggggagctttaaata-------
|||||||||||| |||||||||||||| || |||||||| |||||||||||||| || ||||||||||||||||   |    || ||   || |  |  | |  || |||    | |       ||     | | | |    | |  | |   |||    |  | |  |||       
CAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTGgta-tgtatagctgaa---atattgacttaagaatgtcttggaacttg---acaatcatgtggtgatatatttgtctcttccttaacatatttgttgatagtcttct

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|86058486|gb|DR354243.1|DR354243
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGNATTTG                         GGCACATTGGGGTTACCGTTGATTATGTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTG
EST: gi|86042017|gb|DR337772.1|DR337772
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|124991086|gb|EL063355.1|EL063355
EST:     TTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGTATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATT
genomic: TTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGG-ATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATT
EST: gi|86058483|gb|DR354240.1|DR354240
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGA
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGA
EST: gi|86042021|gb|DR337776.1|DR337776
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCG
EST: gi|86058480|gb|DR354237.1|DR354237
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058481|gb|DR354238.1|DR354238
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86079248|gb|DR375005.1|DR375005
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058489|gb|DR354246.1|DR354246
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86086149|gb|DR381908.1|DR381908
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|301501106|gb|HO206646.1|HO206646
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|124907673|gb|EH981753.1|EH981753
EST:     TGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTG
genomic: TGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTG
EST: gi|125232267|gb|EL246352.1|EL246352
EST:     GGTTATCACAATGGGAACGTCTGAGCCTCGTGGA-TTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: GGTTATCACAATGGGAAC-TCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058485|gb|DR354242.1|DR354242
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTAC
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTAC