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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG

Basic information

species Arabidopsis thaliana
transcript AT2G01250.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 3'ss of exon 4
tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggc-attgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG
   ||||||||   ||   ||  |||| | | ||       |   |||| |  | |   |  || |||||     |||   ||     ||   |  | ||||| ||||||||||| ||||| || || |||||||| || || |||||||| ||| | |||||||| |||||  | || ||
---gttggtttatgaac--cagttttcttagaaa-------tgcgtgaactcttgcgtacgctggtgtattaactttgtgcttaattgtttgattctacagATCTTCAATGGTGTCTTCCTCAAGGTTAACAAGGCAACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG

upper sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 4
tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG
   || ||||||  |||  |    ||| ||  |  || |  |    ||        | |  |||    | ||||     ||     |||   |  | ||||| |||||||| || ||||| ||||||||||||||||| || |||||||||||| | |||||||| |||||  | || ||
---gtgggtttgccaattacg---ttcttgctattgaattatggccga-------ttgtttgtg----aaactggacattta----atttaatttttcagATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG

upper sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G094051_T06 (Zea mays), 3'ss of exon 4
tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG--------------------
   ||  |||   | |||||   ||| |        | |  |   |   || ||| | || |  |||| |    |   | |      |||| || |  |||| ||||||||||| ||||| |||||||||||||| || || |||||||| ||| | |||||||| |||||  | || ||                    
---gtgtgttcactgatgtctgtttttacaattgc-attgctgc-tattataattttgtctg-attgtttgtaaa---actgaacatttgtttattttagATCTTCAATGGTGTGTTCCTCAAAGTCAACAAGGCGACTATTAACATGCTACGCAGGGTTGAGCCATATGTTGCATATGGGTAAGTTTTCTAGCTGATTT

upper sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 4
tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG
   ||  |||   | |||||   ||| |        | |  |   |   || ||| | || |  |||| |    |   | |      |||| || |  |||| ||||||||||| ||||| |||||||||||||| || || |||||||| ||| | |||||||| |||||  | || ||
---gtgtgttcactgatgtctgtttttacaattgc-attgctgc-tattataattttgtctg-attgtttgtaaa---actgaacatttgtttattttagATCTTCAATGGTGTGTTCCTCAAAGTCAACAAGGCGACTATTAACATGCTACGCAGGGTTGAGCCATATGTTGCATATGG

upper sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 4
-tcagttggtttgataatgtcacatttcatggcaaagactagtatatgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG
 |   |  |  ||  ||   |||  || ||    || | | |||| || | | ||          ||   |  || |     ||  | || |||||  ||||||||||||||||| || || ||||| ||||| || ||  |||||||||| | | | |||||||||||||| ||||| ||
atttttgagcatgcaaagagcaccatt-atactgaatatttgtatttgtattcatatagaagcaatttggtgatgctgatccttatctttttgtaaaacagATTTTCAATGGTGTATTTCTCAAAGTTAACAAAGCCACAGTGAACATGCTGCACAGAGTTGAGCCCTATGTGACTTATGG

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|124919984|gb|EH993722.1|EH993722
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
EST: gi|164004646|gb|EL970618.1|EL970618
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTT-CCTT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTT
EST: gi|125010629|gb|EL082898.1|EL082898
EST:     AGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: AGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|124748702|gb|EH838832.1|EH838832
EST:     TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|125319309|gb|EL333394.1|EL333394
EST:     CTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGACT
genomic: CTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATG-CT
EST: gi|125049921|gb|EL122190.1|EL122190
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATAGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAAT-GGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
EST: gi|164037522|gb|ES122063.1|ES122063
EST:     GCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: GCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|164108779|gb|ES025314.1|ES025314
EST:     CGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|124812282|gb|EH897148.1|EH897148
EST:     TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|124984846|gb|EL057474.1|EL057474
EST:     ATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: ATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|164122478|gb|ES111041.1|ES111041
EST:     GCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: GCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|124799609|gb|EH889288.1|EH889288
EST:     GACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGA
genomic: GACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGA
EST: gi|164063060|gb|ES143257.1|ES143257
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGAT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGAT
EST: gi|124745629|gb|EH836441.1|EH836441
EST:     CTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|125242345|gb|EL256430.1|EL256430
EST:     TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGACTACGATGAACATGCT
genomic: TTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGG-CTACGATGAACATGCT
EST: gi|124983668|gb|EL056385.1|EL056385
EST:     AAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: AAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|163985597|gb|EL967501.1|EL967501
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTT-CCTT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTT
EST: gi|125191596|gb|EL206550.1|EL206550
EST:     CTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|164062187|gb|ES070866.1|ES070866
EST:     GCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTG-TTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: GCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|125221559|gb|EL235644.1|EL235644
EST:     CTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTAACGATGAAACATGC
genomic: CTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTA-CGATGAA-CATGC
EST: gi|164069432|gb|ES196094.1|ES196094
EST:     CATTGACCCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CATTGA-CCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|86082419|gb|DR378178.1|DR378178
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACAT-STT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|125100280|gb|EL155788.1|EL155788
EST:     ACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: ACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|164049079|gb|ES080861.1|ES080861
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCC
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCC
EST: gi|163968127|gb|ES170664.1|ES170664
EST:     GACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: GACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|164055456|gb|EL988624.1|EL988624
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAAC
EST: gi|125202366|gb|EL217320.1|EL217320
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|86082295|gb|DR378054.1|DR378054
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACAT-STT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|47828829|gb|CK118513.1|CK118513
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
EST: gi|124705769|gb|EH797171.1|EH797171
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAA
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAA
EST: gi|164081724|gb|ES106353.1|ES106353
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTT-CAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGAT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGAT
EST: gi|125276746|gb|EL290831.1|EL290831
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGA
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGA
EST: gi|125232096|gb|EL246181.1|EL246181
EST:     CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAG                         ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT
genomic: CCATTGACCCTAAGACTAAGAAGATTCTCCAGCTCTTGCGTTTGAGACAGgttcgtgtat ... tgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatgattctatcagtgttgtatactgattgattttggcattgtgtaatgcagATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGG
                             attgatttt  TA-rich tract