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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTGCTTTAAGAGAGGCATACAAGAACAAGAAGCTCTTGCCTCTTGATCTCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacag

Basic information

species Arabidopsis thaliana
transcript AT5G02610.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ36167 (Selaginella moellendorffii), 5'ss of exon 3
ATCTGCTTTAAGAGAGGCATACAAGAACAAGAAGCTCTTGCCTCTTGATCTCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacag
  |     | |||||||| |||||||||||||||  | ||||||| ||||| ||||||||||| || ||||| ||| |  ||||  | || || ||||||||    |  | | || |||||    |     |      ||||  || |   |  |   || |||                                
GGCCAAGCTGAGAGAGGCCTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCCAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAACATCAGgt----aaacaattttccattgtagaggtggtggcag-ctttaaaactttctttc---ttcgcag-------------------------------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ36169 (Selaginella moellendorffii), 5'ss of exon 2
ATCTGCTTTAAGAGAGGCATACAAGAACAAGAAGCTCTTGCCTCTTGATCTCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacag
  |     | |||||||| |||||||||||||||  | ||||||| ||||| ||||| ||||| || ||||| ||| |  ||||  | || |||||||||||    |  | | |||  || |  |  |     | | |||    || |   | ||   |      ||  |                          
GGCCAAGCTGAGAGAGGCGTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCAAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAGCATCAGgt----aaacaatttagaatctagaggtggtggaagctcta--aaactttctcgcttgtgtttcttcgcag-------------------------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ18648 (Selaginella moellendorffii), 5'ss of exon 3
ATCTGCTTTAAGAGAGGCATACAAGAACAAGAAGCTCTTGCCTCTTGATCTCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacag
  |     | |||||||| |||||||||||||||  | ||||||| ||||| ||||||||||| || ||||| ||| |  ||||  | || || ||||||||    |  | | || |||||    |     |      || |  || |   | |    |      ||  |                          
GGCCAAGCTGAGAGAGGCGTACAAGAACAAGAAGTACATGCCTCTGGATCTTCGTCCCAAGAAGACCCGAGCGATCAGGCGACGCTTGACAAAACATCAGgt----aagcaattttccattgtagaggtggtggcag-ctctgaaactttctcgtttgtgttttttcgcag-------------------------

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|125032486|gb|EL104755.1|EL104755
EST:     ATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: ATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|163980122|gb|ES148389.1|ES148389
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTAGAGAAGAAGAAGGAGA
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGT-GAGAAGAAGAAGGAGA
EST: gi|116437117|gb|EG479709.1|EG479709
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|164221965|gb|ES162911.1|ES162911
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGG
EST: gi|124967739|gb|EL041753.1|EL041753
EST:     CAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGAC
genomic: CAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGAC
EST: gi|86026240|gb|DR321993.1|DR321993
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026246|gb|DR321999.1|DR321999
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|116458642|gb|EG501234.1|EG501234
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026245|gb|DR321998.1|DR321998
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|124924831|gb|EL002889.1|EL002889
EST:     GTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAG
genomic: GTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAG
EST: gi|86026239|gb|DR321992.1|DR321992
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|164163384|gb|ES130292.1|ES130292
EST:     CACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: CACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026249|gb|DR322002.1|DR322002
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|125188044|gb|EL202998.1|EL202998
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAG
EST: gi|86026244|gb|DR321997.1|DR321997
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|116467333|gb|EG509925.1|EG509925
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026250|gb|DR322003.1|DR322003
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|116467337|gb|EG509929.1|EG509929
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026247|gb|DR322000.1|DR322000
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026241|gb|DR321994.1|DR321994
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAAGAAGGAGATGTATTTCCCAGT
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAA-GAAGGAGATGTATTTCCCAGT
EST: gi|116434671|gb|EG477263.1|EG477263
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|116437094|gb|EG479686.1|EG479686
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026248|gb|DR322001.1|DR322001
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026243|gb|DR321996.1|DR321996
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|86026242|gb|DR321995.1|DR321995
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTGCTTTAAGAGAGGCATACAAGAACAAGAAGCTCTTGCCTCTTGATCTCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA