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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcatattttcctattgatttcaaatttgatattctgaaagcatctgctcataatgcctttgtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G31810.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os10g02980.1 (Oryza sativa), 3'ss of exon 8
gtatcatattttcctattgatttcaaatttgatattctgaaagcatctgctcataatgcctttgtgttg--cagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
|||||| ||  |   |   |  | |      |  ||||   |   |||  | |   |||   |  ||||  |||| ||||| ||||| |||| | |||||||||| ||||||||||| |||||||| |||||||| ||||| |||||  | |||||||| |||||||||
gtatcaaatagttgaagaaaaattatggaataatttcttcgatggtctttttaatgtgctgattggttgaacagGATCTGCGGTTGGCTTCAGATTAGACAGTCTTCTTAAATTATCAGATACTCGAGCTAGAAACAACAAGATGACACTAATGCATTATTTATGCAAG

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G043530_T01 (Zea mays), 3'ss of exon 8
--gtatcatattttcct--attgatttcaaatttgatattctgaaagcatctgctcata------------atgcctttgt------gttg------cagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
  | ||||  ||   ||  | | | | || |   | |||    || |  | | ||| ||            ||||| ||||       |||      |||| ||||||||||| |||| | ||||||| ||||||||  | || ||||||||  ||||||| || ||||||||  |||||||||| |||||||||
tagaatcaagttcctctcaaataactgcagagaagttatatgcaatgtcttttctcttagaactttctgtgatgcccttgtcggtggattgattgaacagGATCTGCTGTTGGCTTCAGATTAGACAGCCTCCTTAAGCTGTCGGATACTCGATCTAGAAACAATAAAATGACGCTGATGCATTATTTATGCAAG

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA04G14770.1 (Glycine max), 3'ss of exon 12
----------------------------------------------------------gtatcat-attttcctattgatttcaaatttgatattctgaaagcatctgctcata----atgcctttgtgttg-------cagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
                                                            ||  | |  |  | ||   |  |||| |    | | |        ||| | | |    || | ||| |||||       |||| || |||||||| |||||| | || || || ||||||||||||||||||||||| |||||||||||||||||||| |||||||| || || |||
gtatctttttgttaactctcattgtacttgagtgtaatttgcgatggatttgtagtttccattttcacctcaccatcattgacaaaatgagaagtttctgcaatgctgtttagattatatccttttatgttgatcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACTCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA09G34830.1 (Glycine max), 3'ss of exon 12
---------------------------------------------gtatcatattttcctattgatttcaaatttgata---ttctgaaag--catctgctcataatgcctttgtgttg-------cagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
                                               ||   |  |  | ||   |  |||| | |  |   ||||| ||     | |      ||| | ||| |||||       |||| || |||||||| |||||| | || || || ||||||||||||||||| ||||| |||||||||||||||||||| |||||||| || || |||
gtatctttttgttaactctcattatttgagatggatttgtagtttccatttcacctcaccatcattggcaaaatgggaaagtttctgcaatgctgtttaggttgaatccttttatgttgctcattgcagGATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAG

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv02s0033g01360.t01 (Vitis vinifera), 3'ss of exon 12
----------------gtatcatattttcctattgatttcaaatttgatattctgaaagcatct--gctcataatgccttt-----gtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
                 |   | ||    || |||||       |||| ||    | ||| |||  ||| | |   |||||      |  ||||||  ||||  | || |||||  | ||||| || ||||||||  ||||||||||||| ||||| |||||||||||||| ||||||||||| || |||
gtaatgtctattcaactttgtaaatacatcttttgatgcttttcttgacat----agagcttcttagcttacagccccttttccttatactgcagGAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAG

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|86044354|gb|DR340109.1|DR340109
EST:     GCAAACAATTTTAACGTTGGGAAATGCTCTAAATCAGGGAACTGCGAGAG                         GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTC
genomic: GCAAACAATTTTAACGTTGGGAAATGCTCTAAATCAGGGAACTGCGAGAGgtatcatatt ... tgtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTC
EST: gi|86044355|gb|DR340110.1|DR340110
EST:     GCAAACAATTTTAACGTTGGGAAATGCTCTAAATCAGGGAACTGCGAGAG                         GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTC
genomic: GCAAACAATTTTAACGTTGGGAAATGCTCTAAATCAGGGAACTGCGAGAGgtatcatatt ... tgtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttcaaatttgatattctgaaagcatctgctcataatgcctttgtgttgcagGGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG
                                       tgccttt  CT-rich tract
     tcaaatttgatatt  TA-rich tract