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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacttactctaaattttcttatcatgagcctgttgcaagtgatcctggagtctcagtttctatctttaccgtcacgaaccatatctagctacaggttttatggaacctttaccagtaacactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG

Basic information

species Arabidopsis thaliana
transcript AT4G31990.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 9
gtaaaacttactctaaattttcttatcatgagcctgttgcaagt--gatcctggagtctcagtttctatctttaccgtcacgaaccatatctagctacaggttttatggaacctttaccagtaacactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG
                            |    |||||  || |   |   ||   ||| || ||| | ||| |  || || |   ||  ||   || | ||| | |     ||| | |   ||          ||||||||| || |||||||||||||||||||| || || |||||||| ||||| ||||| || ||||| || || || ||| |||| || ||  |   |  | | 
----------------------------tatttctgttttaactagaaagatgacatcttagattcaa-cttgattgtgacaatgtatgcctcagtagaagttcttt-----cttgatcgacaatgtg------tttcagGGTAAAAAGCCAGTTGAAAAGGATTGCCCGACCAATGTACTCTAATCCTCCAGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 9
gtaaaacttactctaaattttcttatcatgagcctgttgcaagtgatcctggagtctcagtttctatctttaccgtcacgaaccatatctagctacaggttttatggaacctttaccagtaacactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG
                                    |  | ||  |   ||   ||| || ||| | ||| |  ||  | |   ||  ||   || | ||| | ||            ||   |    |   ||||||||| ||||||||  ||||||||||||| || || |||||||| |||||||| || || ||||| || || || ||| |||| || ||  |   |  | | 
------------------------------------taactagaaaga-tgacatcttagattcaa-cttgattgtggcaatgtatgcctcagtagaagttctgtgttgatcaacaatgtggtaacgatgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC

upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 11
gtaaaacttactctaaattttcttatcatgagcctgttgcaagtgatcctggagtctcagtttctatctttaccgtcacgaaccatatctagctaca--ggttttatggaacctttaccagta-acactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG
                                        |  | ||  || |   |   | |  |  || | |     ||  | |   | || ||   || |  |||      | |   | | |   |  ||  ||||||||| ||||| |||||||||||||||||||| || |||||||| ||||| ||  ||||||| || || || || |||||||| || ||||||  | || | 
----------------------------------------atatcatgatgaatggtttatctaaag-ttgatccaggtgattcctgagtggcaactttgggtggatgacctgctaatttgcatatttttattcttttcagGGTAAAGAGTCAGTTGAAAAGGATTGCTCGACCAATGTACTCAAATCCTCCTATTCATGGAGCTAGGATTGTTGCCAATGTTGTTGGTGATCCAGCTCTC

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|86079391|gb|DR375148.1|DR375148
EST:     AATGTCGTGTGCTCCTCAGCTGATGCTGCTACAA-                         GGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACC
genomic: AATGTCGTGTGCTCCTCAGCTGATGCTGCTACAAGgtaaaactta ... ttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatctagctacaggttttatggaacctttaccagtaacactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG
                                 cagtaac  putative branch site (score: 2)
                                            cttgctttc  putative PPT
                ttttat  TA-rich tract