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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgatttcattctctttgttattcttgctaggttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG

Basic information

species Arabidopsis thaliana
transcript AT3G13670.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
--------------------gttgatttcattctctttgttattcttgctaggttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG
                    | ||||  ||||   || || |||    ||   | ||| || ||||||||||| |    ||  | ||| |||| ||||||||||||||       || || || |||||||||||||||||||||||||||||||||||
gttagtagttgcaattcaaggatgatg-catttcattcgt-atttacactc--tcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
---gttgatttcattc--------tctttgttattcttgctagg--ttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG-
   || | ||  ||||        |   | | |||| |  |     | ||| || ||||||||||| |    |     |||||||| ||||||||||||||       || || || |||||||||||||||||||| |||||||||||||| 
ttagtagtttcaattcaaggatgatgcatttcattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 7
----gttgatttcattc--tctttgttattcttgctaggttcttcttta------cctttctcatttttcaacca-acttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG
    |||||| | |||     ||   | | | |   |||||  | | |       || |||  | | |     ||   || ||||| ||||| ||||||||       || ||||| |||||||| ||||||||||| ||||||||||||||
gtcagttgatgtaatttaagtttaaatgtgcatttgaggtttctttcttgtgaatcccttcataatatgtgctcatgtttctcagCAACAAAATGGAGAGACACCTCCAGTGGACAGCATGTTGACTATGATCAACGCCCTGATATGTTTAG

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G44050.1 (Glycine max), 3'ss of exon 7
----gttgatttcattc--tctttgttattc-ttgctaggttcttcttta------cctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG
    |||||| | |||     ||   ||| | ||  | | |||||  ||       ||||  | ||   |   |    |||||||| ||||| ||||||||       || ||||| ||||| || ||||||||||||||||||||||||||
gtcagttgatgtaatttaagtttaaatatgcatttgtggtttctttcttgtgaatcccttcatgatacgtgctcatgtttttcagCAACAAAATGGAGAGACACCTCCAGTGGACAGCATGTGGACTATGATCAACGTCCTGATATGTTTAG

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------gttgat---ttcattctctttgttattcttgctaggttcttctttacctttctcattttt----caaccaact-------tttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG
                            ||| ||   || || ||   | | |     | |   | ||| | | | |||   ||||||      | ||| |       || |||| ||||||||||| ||  ||| ||  || || ||||||||||||||||| || ||||||||||||||
gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG

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|86063829|gb|DR359586.1|DR359586
EST:     GCCTTCAACGTCTCAAGAGAAAAAACTGTTTCTTGTTGATTTGGGACTAG                         CTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAAC
genomic: GCCTTCAACGTCTCAAGAGAAAAAACTGTTTCTTGTTGATTTGGGACTAGgttgatttca ... aacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttattcttgctaggttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG
                                               cttttc  CT-rich tract
                                  atttttcaa  TA-rich tract