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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacgaatccctgaatatctccttgaggcttgctactctccaatatatcttttcgtccctttccatttctatgatctaacactgatattcctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT

Basic information

species Arabidopsis thaliana
transcript AT1G77590.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os11g06880.1 (Oryza sativa), 3'ss of exon 2
---------------------------------------------------------------------gtaaacgaatccctgaatatc-tccttgaggcttgctactctccaatatatctt------ttcgtccctttccatttctat-----gatctaacactgatattcctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
                                                                      |      |    ||  ||   |  ||||   |  | |   || ||| || |||      | | |      |||   | ||     | | |     ||   |    |||||||||||| || || |||||||| || || || || |||||||| || || || || |||| ||| ||||  || ||||||||||||||||||||| | 
gtgagatagtactcttcattattttataagccattctcaagtctcttttgttaatatcaagttattgtttttggtccacttgtgtttactgtgattgaacttcacaatattcaaatctaacttgcatactgcattttaaaccaaaacaattgacaggttttgggttgtgctgttgcagGGCTCCAATAGGGCAAGGATATGGTCTTACTGAAACATGTGCTGGCGGGACATTTTCCGAGTATGATGACAATTCTGTTGGCCGTGTTGGTGCTCCATTG

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os12g07110.1 (Oryza sativa), 3'ss of exon 7
------------------------------------------------------------------gta-aacgaatccctgaatatctccttgaggcttgctactctccaat-atatcttttcgtccctttccatttctatgatctaacactgatattc---ctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
                                                                    | || |||  | | ||| |   |   | |     |   ||    | || | |||         |  |   ||  ||  |||||    ||| |    |||||| |||||| || || || ||||| || || ||||| |||||||| ||||| || || |||| ||| ||| |||| ||||| || |||||||||||||| 
gtaagattatgaataccatcatcccatgttgttagttgccatccttgtttaatgaactatgtttaaacacaatgaaatcataaatttaaacacaatgaagaatgaactatgcttatttgtttcaacatgcatagagacctgggaattaacaagtttatgcaatttcagGGTTCCAATAGGGCAAGGGTATGGTCTTACTGAGACATGTGCTGGAGGAACATTTTCTGAGTATGATGACCCATCTGTTGGTCGCGTTGGTGCTCCACTA

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G118286_T01 (Zea mays), 3'ss of exon 7
--------------------------------gtaaacgaat-ccctgaa----tatctccttgaggcttgctactc-tccaatatatctttt---cgtccctttccatttctatgatctaacactgata---ttc-------ctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
                                |    | | |  | ||||    ||| | |     || |||   |  | | ||| || | ||     | |||  |  | | |    ||| ||| |||||   ||         ||||||||||||| || || || ||||| || || || ||||||||||| || || || || |||| ||| |||||||| || || ||||||||||||||||| 
gtaagattatgtatgcctcatttctgttgtttgatggcaattatcttgaaatcctatgttcccatcgcatgcatttaatacgataaatatgttatgacttcctcactgtgtttgcagtctgacattgataaggtttatgcaatttcagGGCTCCAATAGGGCAAGGTTATGGTCTGACTGAAACTTGTGCTGGAGGGACATTTTCAGAGTATGATGACACATCTGTCGGTCGTGTTGGTGCTCCACTA

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G23710.1 (Glycine max), 3'ss of exon 6
-gtaaacgaatccctgaatatctccttgaggcttgctactctccaatatat-cttttcgtccctttccatttctatgatctaacactgatattcct-cagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
     |   ||  |||  | |  |      ||||  |  | |   || | | | |||| |   ||     |||| |||| ||  | | ||  || |  || |||||||||||||| |||||||| ||||||||||||||||||||||| || ||||| ||  |||| || ||||| ||||||||||||||  | || |||
aaaggaaatattactggcttttactcaagtgctttttcttttttgatttttgcgtttcctttattatttattctgtgatttataatttatggtcatatagTGCTCCAATCGGTCAAGGATATGGTCTCACAGAGACTTGTGCTGGTGGGACATTCTCTGATGTTGATGATACATCTGTTGGCCGTGTTGGACCACCTCTT

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G03280.1 (Glycine max), 3'ss of exon 6
gtaaacgaatccctgaatatctccttgaggcttgctactctccaatatat-cttttcgtccctttccatttctatgatctaacactgatattc---ctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
    |   ||  ||   | |  |  |   ||||  |  | |    | | | | |||| |   ||    || || | || ||  | | ||  ||    |||| |||||||||||||| |||||||| || |||||||||||||||||||| || ||||| ||  |||| || ||||| || |||||||||||  | || |||
-aggaaatatttctagcttttactgtagtgctttttcttttttgctttttgcgtttcctttattattcttgctgtcatttataatttatggtcatattcagTGCTCCAATCGGTCAAGGATATGGTCTTACAGAGACTTGTGCTGGTGGGACATTCTCTGATGTTGATGATACATCTGTCGGCCGTGTTGGACCACCTCTT

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G11860.1 (Glycine max), 3'ss of exon 6
gtaaacgaatccctgaatatctccttgaggcttgctactctccaatatatcttttc-gtccctttccatttctatg--atctaacactgatattc---ctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
    |  | |  ||   | | || |  |   || ||  | | |  || |  ||| | ||    |    ||||| |   || ||    || | |||    |||| |||||||| ||||| |||||||| || ||||||||||||||||||||  | ||||| || ||||| || ||||| ||||| ||||||||  | ||  ||
---tagaattgtctagctttatcatgtactttttctgttttgctttacagatttcctgtattatcttttttctgtcacatttatatttggttttcattttcagTGCTCCAATAGGTCAAGGATATGGTCTAACAGAGACTTGTGCTGGTGGGTCATTCTCTGATTTTGACGATACATCTGTTGGACGTGTTGGGCCACCTGTT

upper sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 8
------gtaaacgaatccctgaatatctccttgaggcttgctactctccaatat-atcttttcgtccctttccatttctatgatctaacactgatattcctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
      | ||||   |  |||   || ||||  |  | ||| | | | |||||| ||| || |     ||   ||| || | |   |||  ||  |||  |||| |||||||| | ||| || ||||| || ||||||| |||||||||||| || || || |||| ||| || ||||| ||||| ||||||||||||||||||
atttaaggaaacacttagctggcaatgtcctacaatcatgc-agtatgcaatattatccttcctcttgttgtaattgctctaagtgaac--tgtcattt-tcagTGCTCCAATAGTTCAAGGGTATGGCCTGACAGAGAGTTGTGCTGGTGGTACATTTTCCGAGTATGATGATACATCTGTTGGTCGTGTTGGTGCTCCACTT

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|19875635|gb|AU236466.1|AU236466
EST:     GGTGCCCCTCTTTCTGGTGACACTCAGAGATTCATTAACATCTGCGTTGG                         GGCTCCAATCGGNCAGGGATATGGGCTCACAGAGACTTGTGCTGGNGGAAC
genomic: GGTGCCCCTCTTTCTGGTGACACTCAGAGATTCATTAACATCTGCGTTGGgtaaacgaat ... tattcctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatatatcttttcgtccctttccatttctatgatctaacactgatattcctcagGGCTCCAATCGGTCAGGGATATGGGCTCACAGAGACTTGTGCTGGTGGAACCTTCTCGGAGTTTGAGGACACATCCGTTGGCCGTGTTGGTGCTCCACTT
                                             tattcctc  CT-rich tract
     tatctttt  TA-rich tract