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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactttcttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT

Basic information

species Arabidopsis thaliana
transcript AT1G79530.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 4
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactttcttaagaattttcttttaggcccccaactt-tttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                                 |||||   || | |   |||| | |   |   ||      |  |      || || || |  ||| ||    | |||  | |  ||||| ||   ||     ||| ||||| || ||||| ||||||||||| || ||||||||    || ||||||||||| ||||| || || ||||| || ||||||||||| || |||||
-------------------------------cagaagt---agtttacagtttattgtaccatacatcaaaagtaggcgaaataatttattgctatttgtttgtaatgcttgtcttatttttttg---gtatcatagGGTTTGGGCGAATTGGGAGGTTGGTCCTGCGTATTGCAACCAGTAGAGATGATATTGAAGTTGTTGCTGTCAATGATCCTTTCATTGATGCTAAATACAT

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 4
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactt--tcttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                                       |    | |   |  | ||      ||| ||   ||    |      | |   | |  ||||| ||      |     | || || | |   | ||| ||| ||||| |||||||| ||||||||||| || ||||||||    || ||||||||||| ||||| || ||||||||||| ||||||||||| ||||||||
--------------------------------------tctgagttactttgcagttgaatgcaagtatggactaggtgaattatatcagatcctatttctgatttgttattccccccttcttttcttgttactgtagGGTTTGGGCGGATTGGCAGGTTGGTCCTGCGAATTGCAACCAGCAGAGATGATATTGAAGTTGTGGCTGTGAATGACCCTTTCATTGATGCTAAGTACAT

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G051004_T01 (Zea mays), 3'ss of exon 4
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttacttt--cttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                                     | |    | |   |  | |||     ||| ||   |     |  |   | |   |||  ||||| ||     ||       ||||  |||   | ||  ||| ||||| |||||||| ||||||||||| || ||||||||    || || |||||||| ||||| || ||||||||||| ||| ||||||| ||||||||
-----------------------------------ctttctgagttactttgcagtttgatgcaagtatgaaccaggtgaactatatcagattctatttctgatttgctcttgccctcttttcttgt---tactatagGCTTTGGGCGGATTGGCAGGTTGGTCCTGCGAATTGCAACTAGCAGAGACGATATTGAAGTTGTGGCTGTGAATGACCCTTTCGTTGATGCTAAGTACAT

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 4
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactttcttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                          ||   ||||||    | |   |   ||  |   |  | || ||  |  | |         ||| |  || ||||  |  | || |  | |  ||  ||||       ||||||||||| ||||||||||||||||  | ||  | || || ||  | |||||| |||| ||||| ||| | ||||| ||||| |||||||| || || ||
------------------------ggttatattgaagatgaaaaaacttggtttttgaatggaaaacttattcatggattt-----tttctgtgtgtctttagataacttacatatgcttaatgtg-------cagGTTTTGGTAGGATTGGAAGGTTGGTGTTACGTGTAGCTACTTCCCGAGATGATGTTGATGTTGTTGCAATTAATGATCCATTTATTGATGCAAAATATAT

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactttcttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                                    |||  | ||  ||||    ||   | ||      | |  |           | |   | |  || || | | | || ||||  || |   | |  ||||||||||||||| ||||||||||||||  | ||  | ||||| || |||||||||||||| || |||||||| ||||| |||||  |||||||||| |||||
---------------------------------atggtctaatat--tcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtg-atgataatgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT

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|86039046|gb|DR334801.1|DR334801
EST:     GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
genomic: GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtatgtgctt ... agtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
EST: gi|86039047|gb|DR334802.1|DR334802
EST:     GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
genomic: GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtatgtgctt ... agtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
EST: gi|86039050|gb|DR334805.1|DR334805
EST:     GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
genomic: GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtatgtgctt ... agtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
EST: gi|86039044|gb|DR334799.1|DR334799
EST:     GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGGATTGGAAGGNTGGTCCTCCGCATTGCAACATCAAGGGATG
genomic: GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtatgtgctt ... agtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
EST: gi|86039048|gb|DR334803.1|DR334803
EST:     GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACG                         GTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG
genomic: GGTCAAGTAGCAGTGGAAAGACAAAGGTTGGGATCAACGgtatgtgctt ... agtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
                             atttctttttt  TA-rich tract