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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaatcaaaacgaaaacgttatctcatagagttagagtaagttcttttaaaggattcatgctaagtgtttttggtgttttttactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTTTCCCCGATTCCTCAGTATCCATTGTACTCGGCTTCAATTGCCCTTCATG

Basic information

species Arabidopsis thaliana
transcript AT1G72330.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G72330.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g25130.1 (Oryza sativa), 3'ss of exon 7
gtaacaatcaaaacgaaaacgttatctcatagagttagagtaagttcttttaa-----aggattcatgctaagtgt--ttttggtgttttttactc-------tatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTTTCCCCGATTCCTCAGTATCCATTGTACTCGGCTTCAATTGCCCTTCATG
       |   |||   | | |  | | | |   |||  | |  || ||| ||     ||||  ||     | | |  || || || | ||  | |       | ||||||||||||||||||||  | ||  | ||    ||||||||||| ||||| | ||| |||||||| ||||| |||||||| || || ||||| |||||||
------gtaggaactttaccttcttttta-aatcttactggacattttttgaataaacaggaagcagttcgaatctcattatgatgctattctccccctctgttttagGTTCACATGATGATGCAGTTACTGATAAGGAACGAGAAAGATGGCATTCTCTGCCCAATTCCTCAATATCCTTTGTACTCAGCCTCCATTGCTCTTCATG

upper sequence: AT1G72330.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g00340.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------gtaacaatcaaaacgaa-aacgttatctcatagagttagagtaagttct---tttaaaggattcatgctaagtgtttttggtgttttttactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTTTCCCCGATTCCTCAGTATCCATTGTACTCGGCTTCAATTGCCCTTCATG
                                   |  |  |   | |    || |  | || || ||      || | ||     ||| ||| ||  ||   || |||||||    |   |  ||    |||| || |||||||||||  | ||  | ||  | ||||| ||||| |||||||  || ||||||||||| || |||||||| ||||||||||  || ||||
gtaaatttcaatttctgttttgttttttttttttctttcttttgtatcttttaatgacaactaattgaaaatttgtgattttaaaatttcaagcataaataacaaatgttttt---ctccctctcttatcagGTCCATATGATGATGCAGTTACTGATAAGAACGGAGAAGGATGGAATTCTTTGTCCCATTCCTCAGTACCCTTTGTACTCTGCTTCAATTGTTCTACATG

upper sequence: AT1G72330.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S120_131V6.2 (Physcomitrella patens), 3'ss of exon 8
--------gtaacaatcaaaacgaaaacgttatctcatagagttagagt---aagttcttttaaaggattcatgctaagtgtttttggtgttttttactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTTTCCCCGATTCCTCAGTATCCATTGTACTCGGCTTCAATTGCCCTTCATG
         | || || |      |||  ||   ||  |  ||   | |   || ||||  |   |  |||||    |||  |   |   |    ||  | | |||||||||||||||||||  | || ||||||||||| |||||||| ||| | |  || ||||| |||||||| |||||||| || || |||||  | ||||
gtaagtttctgaccat-atgtttcaaaaattgcttcgaatggtcgtaattttaaattctcctgtcgc-ttcatc---agt-ctaacgacataagatatacgacagGTTCACATGATGATGCAGTTGCTTTTGAGCTCAGAAAAAGATGGAATTTTGTGTCCTATTCCACAGTATCCTTTGTACTCTGCATCCATTGCGTTGCATG

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|86054017|gb|DR349774.1|DR349774
EST:     TCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTCCAGCG                         GTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTT
genomic: TCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTCCAGCGgtaacaatca ... tactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTT
EST: gi|86054013|gb|DR349770.1|DR349770
EST:     TCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTCCAGCG                         GTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTT
genomic: TCCCTGCTGATCCAAATGATATTTTCTTGACTGATGGTGCAAGTCCAGCGgtaacaatca ... tactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagttcttttaaaggattcatgctaagtgtttttggtgttttttactctatagGTTCACATGATGATGCAACTTCTCTTGAGCTCAGAGAAAGATGGTATTCTTTCCCCGATTCCTCAGTATCCATTGTACTCGGCTTCAATTGCCCTTCATG
                                        ttttttactct  CT-rich tract
                                        ttttttactctata  TA-rich tract