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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgactttactaaagtcaactttctaacggacagtcatagttaattatttacttgcgtctcaattatttggctgtattccttttcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGACGCGGTTCTCAGTGTTACCCAG

Basic information

species Arabidopsis thaliana
transcript AT5G48030.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G48030.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA12G36820.1 (Glycine max), 3'ss of exon 13
gtgactttactaaagtcaactttctaacggacagtcata--gttaat-tatttacttgcgtctcaattatttggctgtattccttttcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGACGCGGTTCTCAGTGTTACCCAG
|| |||| | ||   |     ||  ||    |  |  |   ||||||   |||| |   | |    |||||||  | |  |  ||| |||||| | ||||| ||||| || |||||||||||||| ||||||||||| || || ||| | ||| | || |||
gt-acttcaatagcttgggagttggaagtctctatttttttgttaatacttttagtcttgacatttttatttgtttctcctt-tttgcagGTTAGAGAAGACCCTGTTTTTCGCAGAGAAGGATCTGATATTCATGTAGATGCTGTTTTAAGTATCACTCAG

upper sequence: AT5G48030.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA09G00580.1 (Glycine max), 3'ss of exon 13
gtgactttactaaagtcaactttctaacggacagtcatagttaattatttacttgcgtctcaattatttggctgtattccttttcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGACGCGGTTCTCAGTGTTACCCAG
|| |||| | ||   |  |  |    |       |  | | || || |  |||||    |   |||||||  |||  |  ||| |||||| | ||||| ||||| || |||||||||||||| ||||||||||| || || ||| | ||| | || |||
gt-acttcaatagcttggaagtcgctattttt--ttgttgatacttttaaacttgacattt--ttatttgtttgtcctt-tttgcagGTTAGAGAAGACCCTGTTTTTCGCAGAGAAGGATCTGATATTCATGTAGATGCTGTTTTAAGTATCACTCAG

upper sequence: AT5G48030.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G16150.1 (Glycine max), 3'ss of exon 13
gtgactttactaaa-gtcaactttctaacggacagt--catagtta-attatttacttgcgt---ctcaat---tatttggctgtattccttt--tcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGACGCGGTTCTCAGTGTTACCCAG----------------------------
|| ||| | | |    |  |     |   | ||| |  |||  |||   ||| |  |  | |   | ||||   | |||    || |||||||   |||||  | ||||||||||| ||||| |||||||||||  |||||||||| || || ||  | ||| | || |||                            
gtaactcttcaatctattcatagcttggtgaacatttccatttttatgctatatcttctcataagcccaataacttttttatcgttttcctttgtgcagGTCAGGGAAGATCCTGTCTTCCGTAGAGAAGGATCTAATATTCATGTAGATGCTGTCTTAAGTATCACTCAGGTAATGTTCCTTAATGAAAAAGTTTTGA

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|86076445|gb|DR372202.1|DR372202
EST:     GGGCTGATCCTGAA-GTGACCAGCCTGGAGATCTTTATGTTACTCTCAAG                         GTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGAC
genomic: GGGCTGATCCTGAAGGTGACCAGCCTGGAGATCTTTATGTTACTCTCAAGgtgactttac ... tccttttcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcatagttaattatttacttgcgtctcaattatttggctgtattccttttcagGTTCGTGAAGATCCTGTGTTCCGCAGAGAAGGATCGGATATTCATGTGGACGCGGTTCTCAGTGTTACCCAG
      agttaat  putative branch site (score: 4)
                                       ctgtattccttttc  putative PPT
     tagttaattatttact  TA-rich tract