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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgtgttaccagaaatgtgatgccattttatatgtctattactttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG

Basic information

species Arabidopsis thaliana
transcript AT5G37850.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os12g40830.1 (Oryza sativa), 3'ss of exon 2
ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgt-gttaccagaaatgtgatgccattttatatgtctattactttc---ttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG------
   |   | |||| | || || |   ||   |  |   || ||| |  || | | | |   | |  | || | |  ||     || || ||  |||    ||||||||| ||||| ||||||||||| |||||||| || ||| |  |||| | |||||||||||| || ||||| ||||| || || ||||||||||      
---ttagtgtatgatggatttgttttacaagtagtgaattatgttttagtttttcgctttgatatgtatggt-ctgttgggcctgccttttttttttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTTGATGTGGATCCGATAAACTCGGTACAGTTTTCTAATCATACAGGTAGAG

upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os12g40830.3 (Oryza sativa), 3'ss of exon 2
ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgt-gttaccagaaatgtgatgccattttatatgtctattactttc---ttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG
   |   | |||| | || || |   ||   |  |   || ||| |  || | | | |   | |  | || | |  ||     || || ||  |||    ||||||||| ||||| ||||||||||| |||||||| || ||| |  |||| | |||||||||||| || ||||| ||||| || || ||||||||||
---ttagtgtatgatggatttgttttacaagtagtgaattatgttttagtttttcgctttgatatgtatggt-ctgttgggcctgccttttttttttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTTGATGTGGATCCGATAAACTCGGTACAGTTTTCTAATCATACAG

upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G069758_T02 (Zea mays), 3'ss of exon 3
ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgtgttaccagaaatgtgatgccattttatatgtctattacttt--cttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG
 |      ||  | ||  |||    | |     |  ||  |  | |     |   |       |   || |  | | | ||      ||| ||     | |||| |||||||| |||||||| || |||||||| || ||  |  | || | ||||||||||||||| ||||||||||| || || ||||||||||
atagtctgcttcgattttgtttcagagcaagaatcattgagcattttcactttcttatttgatagcctgct--cttctcattctctgattgctccaattcagGGGTATGTTGGCAACAAATCGGCCGTCTTTCCCCTGCAGCTCCTTGGCTTTGATGTGGATCCAATAAACTCTGTACAGTTTTCTAATCATACAG

upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G33970.1 (Glycine max), 3'ss of exon 2
ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgtgttaccag--aaatgtgatgccattttatatgtctattact-ttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG
   ||      ||        ||  ||  |  || |   | ||  ||    |   | || |   || |    || |||| |   ||| |  || | |||| |||| ||||||||||| ||||| |||||||| ||||| |||||  |||| ||||||||||||||||| || ||||| || || |||||||||||||
--ctcggcaattggcaataccctttaatgtcattgtcagt-tgcatgcagcttgctaactaattaattaccttgacattgtggctgtttgctattattctcagGGGTATGTTGGTAATAAATCCGCTGTCTTCCCTCTGCAATTACTGGGATATGATGTGGATCCAATTAATTCTGTGCAGTTTTCGAATCATACAG

upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G04360.1 (Glycine max), 3'ss of exon 2
ctgtctctctatgcttgagttctgcaactttt--ttttttttgtgtgtgtgtgtgtgttaccag--aaatgtgatgccattttatatgtctattact-ttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG-
   | |||      ||   | | | ||  |||  | || ||      ||  ||    || | |   || |    || | || |   ||| |  || | |||| |||| ||||||||||| ||||| |||||||| ||||| ||| |  |||| |||||||| |||||||| || || || || || ||||||||||||| 
---tttcttggcaatt---tgcagtaatctttgatgttattatcaattgcatgcagcttgctatgtaattaccttgactttgtggctgtttgctattattctcaggGGTATGTTGGTAATAAATCCGCTGTCTTCCCTCTGCAACTACTGGGATATGATGTCGATCCAATTAATTCCGTGCAGTTTTCGAATCATACAGG

upper sequence: AT5G37850.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0006g01660.t01 (Vitis vinifera), 3'ss of exon 2
--ctgtctctctatgcttgagttctgcaacttttttttttttgtgtgtgtgtgtgtgttaccagaaatgtgatgccattttatatgtctattactttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG
      |  |  |   |    || || |  |   |||  | ||| |||| ||   |  ||   |     | |   ||||     | |||||| |   |||||||||||||||| || ||||| ||||||||||| || ||  |  |||| |||||||| ||||||||||| || ||||| ||||| ||||| ||||
aaacaccatttcaacataagcttatgtagttacatttaatgtgtttgtg-gtagattatatttgtgtcttaacttcattaccattttctatttccc-cttagGGATATGTTGGCAATAAATCGGCTGTCTTTCCCCTCCAGCTACTGGGCTATGATGTCGATCCAATCAATTCAGTACAGTTCTCAAATCACACAG

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|125254300|gb|EL268385.1|EL268385
EST:     CGTGTTCTTAGTATCCAATCCCACACTGTTCAG                         GGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGG-TAT
genomic: CGTGTTCTTAGTATCCAATCCCACACTGTTCAGgtttttgttc ... actttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTAT
EST: gi|124944817|gb|EL020882.1|EL020882
EST:     ATACTGGTCGTGTTCTTAGTATCCAATCCCACACTGTTCAG                         GGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTAT
genomic: ATACTGGTCGTGTTCTTAGTATCCAATCCCACACTGTTCAGgtttttgttc ... actttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtgtgtgttaccagaaatgtgatgccattttatatgtctattactttcttagGGATATGTTGGTAACAAATCAGCTGTCTTTCCTCTTCAATTGTTGGGGTATGATGTGGATCCAATCAACTCTGTACAATTCTCGAATCATACAG
                                       tctattactttctt  CT-rich tract
                             attttatatgtctatt  TA-rich tract