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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttttgatttagttaatcttctttatagtcttaagagggtttgtggtgtttgttttcatggtgatttcttcgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT

Basic information

species Arabidopsis thaliana
transcript AT1G70160.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G70160.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os09g22440.1 (Oryza sativa), 3'ss of exon 2
gtaggttttt-------gatttagttaatcttctttatagtcttaagagggtttgtggtgtttgttttcatggtg-atttcttcg-----atgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT
||  |||||          |||  ||       ||| |   | |   |    || |    ||  | || ||| |  | |  ||||      |||  |||||||| | || ||| | || || ||||| |||||||| || |||||||| || ||| ||||||||||||||||  ||||| | || |||||||||| ||
gtgtgttttcttcccaaagtttctttccctcctttttttaccatgcaatatcttatcaaattaatcttaatgatacaatctttcgtgtttgtgatcagGTGAAGCAACACGGCATCTCTGTTTTTCTCATGCCATCTGGGATGCTTGGAACTTTGTTATCTTTGATTGATGTCCTACCTTTGTTTTCCAATACTGGTT

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G031824_T01 (Zea mays), 3'ss of exon 2
-----gtaggtttttgatttagttaatcttctttatagtcttaagagggt-ttgtggtgt----ttgttttcat--ggtgatttcttcga-----tgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT
      |   ||| || | ||||     |||  | | || ||||  |  |  | |    |    ||  | ||||  |   | | |||| |     |||  ||||||||||||||||| ||||  | ||||| |||||||| |||||||| || || ||||||||||||||||||||  | ||| | || || || ||||| |
gtgtgttttctttctgttatagtgttatttcccttttgttttaatggcttgctatcccatcaaattaatctcatcagtctaatacttcaagtttgtgatcagGTGAAGGAGCATGGCATTTCTATTTTTCTCATGCCATCTGGAATGCTCGGAACTTTGCTATCTTTGATTGATGTCCTGCCTTTGTTTTCAAACACTGCCT

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
------gtaggtttttgatttagttaatcttctttatagtcttaagagggtttgtggtgtttgttttcatggtgatttcttcgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT
       |  ||| ||| |||  ||  | |      |  | || | |   |   |  | |  |  |  |        |   |  |||| |||| ||| |||||||| | || || ||||| ||||||||||| ||||| ||||| ||||| ||||| || || || |||||||| || || || || || |
gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaac-tccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT

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|116483746|gb|EG526338.1|EG526338
EST:     ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATAT                         GTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
genomic: ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATATgtaggttttt ... cgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
EST: gi|47829214|gb|CK118898.1|CK118898
EST:     ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATAT                         GTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
genomic: ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATATgtaggttttt ... cgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
EST: gi|124739090|gb|EH830252.1|EH830252
EST:     AGAAAGCTGAATTGGAATAT                         GTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
genomic: AGAAAGCTGAATTGGAATATgtaggttttt ... cgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
EST: gi|116483745|gb|EG526337.1|EG526337
EST:     ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATAT                         GTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
genomic: ATCATACTTTGAACTTTGATTCTTGGGAAGAGAAAGCTGAATTGGAATATgtaggttttt ... cgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
EST: gi|164001880|gb|ES106948.1|ES106948
EST:     CTGAATTGGAATAT                         GTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG
genomic: CTGAATTGGAATATgtaggttttt ... cgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtcttaagagggtttgtggtgtttgttttcatggtgatttcttcgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT
                                       tttcttc  CT-rich tract
                       tttgtttt  TA-rich tract