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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttgtcccactatgctgtataacttaattctgtttggttttgtgcttcccacgaatgttgtagtcttaatttttcttctttcatgaagGCTGGCTAGTTGCATGTTGGCCTCAGGAAGTGATGACGGGACATTCTCCATCCGTGATCTTAGACTGATCAAA

Basic information

species Arabidopsis thaliana
transcript AT2G19540.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G19540.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G11020.1 (Glycine max), 3'ss of exon 9
gttcttgtcccactatgctgtataacttaattctgtttggttttgtgcttcccacgaatg--ttgtagtcttaatttttcttctttcatgaagGCTGGCTAGTTGCATGTTGGCCTCAGGAAGTGATGACGGGACATTCTCCATCCGTGATCTTAGACTGATCAAA
      ||   | ||   |    || |  ||  ||||   |    ||||   |  ||     |  |    ||  | | | || |     | ||| |||||||||| ||||||||||| || |||||||| |||||  | || || |||||||| |||||| |||| 
------gtattaatacatt----aattctatggtgttccatcaattgctattctagatctcttcatcactttgttctatattatgctgagcagGTTGGCTAGTTGTATGTTGGCCTCGGGGAGTGATGATGGGACTATTTCTATTCGTGATCTCAGACTGCTCAAG

upper sequence: AT2G19540.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA05G28040.2 (Glycine max), 3'ss of exon 9
gttcttgtcccactatgctgtataacttaattctgtttggttttgtgcttcccacgaatgttgtagt-cttaatttttcttctttcatga--agGCTGGCTAGTTGCATGTTGGCCTCAGGAAGTGATGACGGGACATTCTCCATCCGTGATCTTAGACTGATCAAA
      ||   | ||   |    || |  ||  ||||   |    ||||   |  ||    |  |   |||  || || |  | |  |||  ||| |||||||||| ||||||||||| || |||||||| |||||  | || || |||||||| |||||| |||| 
------gtattaatacatt----aattctatggtgttccatcaactgctattctagatctcttcatcactttgttcttatattatactgagcagGTTGGCTAGTTGTATGTTGGCCTCTGGGAGTGATGATGGGACTATTTCTATTCGTGATCTCAGACTGCTCAAG

upper sequence: AT2G19540.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv11s0016g02270.t01 (Vitis vinifera), 3'ss of exon 8
gttcttgtcccactatgctgtataacttaatt-ctgtttggttttgtgcttcccacga-atgttgtagtcttaatt-----tttcttctttcatgaagGCTGGCTAGTTGCATGTTGGCCTCAGGAAGTGATGACGGGACATTCTCCATCCGTGATCTTAGACTGATCAAA
|| |||   ||   ||  ||     ||| ||| | ||    || ||||| ||   | | |||  ||   |||| ||     || ||  || |    ||||||||||| || ||| ||||||| ||||||||||| |||||||| || || |||||||||||  || |||| 
gtgcttaaaccttaatattgctc--cttgattgcagtacttttctgtgcctcatgctatatgcagtgaccttacttggtcattcctgattcctattagGCTGGCTAGCTGTATGCTGGCCTCTGGAAGTGATGATGGGACATTTTCTATTCGTGATCTTAGGTTGCTCAAG

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|125000079|gb|EL072348.1|EL072348
EST:     CTATCTTTCAAGGCACATAACGCAGATGTGAATGTCATCTCATGGAACAG                         GCTGGCTAGTT
genomic: CTATCTTTCAAGGCACATAACGCAGATGTGAATGTCATCTCATGGAACAGgttcttgtcc ... tttcatgaagGCTGGCTAGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttttgtgcttcccacgaatgttgtagtcttaatttttcttctttcatgaagGCTGGCTAGTTGCATGTTGGCCTCAGGAAGTGATGACGGGACATTCTCCATCCGTGATCTTAGACTGATCAAA
                              tcttaat  putative branch site (score: 3)
                              tcttaatttttcttct  CT-rich tract
                                ttaatttttcttcttt  TA-rich tract