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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttaagtcttgtatttaatatgtcaataataaactacatttctcctgagagaattcctaatattggtcaatttgtatagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA

Basic information

species Arabidopsis thaliana
transcript AT1G48850.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os03g14990.1 (Oryza sativa), 3'ss of exon 10
--------------------------------------------------------gttagttaagtcttgtatttaatatgtcaataataaac--tacatttctcctgagagaattcctaatattggtcaatttgtatagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA
                                                          ||| |   |  |  ||| || |  | | || ||||   || |   |   ||    | |   ||  ||  ||   |   |  |||||||||| |||||||||||||| ||| || | | |||||| |||||||||||  | || ||||| 
gttttatcctagtcccctgttgttttacagttatattatttattgttttcgctacatctagctgcattctagattaaaaaaat-actagtaaatagtataacaccgttgtcttagtatttataatgtgtatgtccatgcagGGAGGGATATCAAATGGTGAAATTATATACTTCAAAGTAGCTTTCAAGCCAACCGCGACTATTGGG

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G31980.1 (Glycine max), 3'ss of exon 10
------------------gttagttaagtcttgtatttaatatgtcaataataaactacatttctcctgagagaattcctaatattggtca-atttgta--tagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA
                    |   ||| |  | | ||  | || |  |     |   ||||||||  |    |  || || |||||      |||   |   |||| || || || ||||| ||||| || || |||||| |||| ||||||||||||||||||||||||
gtatttgtgctgttctataattactaattagttttttctagatatgcactgacagtcacatttcta-tatttgttttacttatattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G35560.2 (Glycine max), 3'ss of exon 10
--------------------------gttagttaagtcttg-tatttaatatgtcaataata-aactacatttctcctgagagaattcctaatattggtcaatttgtatagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA
                           ||||||   ||| | |||  | ||| ||| | | |   ||| |||| |  |      |||     |||||  ||||      |||| || || || ||||| ||||| || || |||||| |||| ||||||||||||||||||||||||
gtatttgtgctgttctgtaattactaattagttgtttctagatatgcactatatcagtcacatgtctatatttgttttacttatattatctgtattga-caatc-----agGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 3'ss of exon 10
------gttagttaagtcttgtattta-atatgtcaataataaactacatt--------tctcctgagag-----aattcctaatattggtcaatttgt---atagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA
      ||||  ||  |   | ||||  || |||     || |  |   ||        | |  | ||       | | | | | || | |     ||    | |||| || || ||||| || ||||| |||||||| ||| |||  |||||||||||||| |||||||||
gtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatgcaccattttttaagcatcttcagtccttgagatcgtttctgctgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCAACATCTACAATTGGA

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|124939076|gb|EL015649.1|EL015649
EST:     TGAAAATGGAAGAATACGTACCAGAACCAACCGATCTGGTAGGAATTCAG                         GGAGGGATCTCAAATGGTGAGATAATAAACA
genomic: TGAAAATGGAAGAATACGTACCAGAACCAACCGATCTGGT-GGAATTCAGgttagttaag ... atttgtatagGGAGGGATCTCAAATGGTGAAATAATAAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataataaactacatttctcctgagagaattcctaatattggtcaatttgtatagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA
                              tcctaat  putative branch site (score: 2)
                                            aatttgtata  TA-rich tract