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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgaaaacacataattaagtcattaccatcagttgtaggaattatcatgatggcgatcccaaatactaattagtatttataatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTGGGTCACCATGCTATAAAGAGTGCTTCCATTCATGGGAATACCAAAGAGC

Basic information

species Arabidopsis thaliana
transcript AT1G25230.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25230.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G09880.2 (Glycine max), 3'ss of exon 4
--------gtac-ttgaaaacacataattaagtcattaccatcagttgtaggaattatcatgatggcgatcccaaatactaatta-gtatttataatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTGGGTCACCATGCTATAAAGAGTGCTTCCATTCATGGGAATACCAAAGAGC
        |||| ||| | | | ||   | |    ||||    |  | ||   |||  |||| |    |       || | |||    | |||       |||||  ||||  | | | ||  | |||||| |||||||||||| |||||||||||||||||| | || |  |||||   | | || || |||||  | ||||
aatcatttgtacgttgtatatatatccgttaacttttacatcta--tatatatatt-ccatgttaattaaattggttaatcattgtacacttaactaaaatagGATGTGGATTTAGCTTTACAACAATCAAATGCAAAATGGAAGATTGTGGTGGGTCACCATACAATTAGAAGTGCCGGCGTGCACGGTAATACGGATGAGC

upper sequence: AT1G25230.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G26920.1 (Glycine max), 3'ss of exon 6
--gtacttgaaaacacataattaagtcattacca--tcagttgtaggaattatcatgatggcgatcccaaatactaatta--gtatttataatgtg--tagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTGGGTCACCATGCTATAAAGAGTGCTTCCATTCATGGGAATACCAAAGAGC
   ||    ||||   | | | | |  |  |  |  |||  | || |||| ||    | |  | |   |    ||||||   |||    |||| |   |||||  ||||  ||| | ||  | |||||| |||||||||||| |||||||||||||||||| | || |  |||||   | | || || |||||  | ||||
atataaaataaaatgtaaattcatgcaaagaaaaattcatatatatgaatcatttgtacgttg-tttaattggctaattgttgtacacttaatttaattagGACGTGGATTTGGCTTTACAACAATCAAATGCAAAATGGAAGATTGTGGTGGGTCACCATACAATTAGAAGTGCCGGCTTGCACGGTAATACGGATGAGC
















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|86018669|gb|DR314415.1|DR314415
EST:     ACTGGAGCGGCGTATCACCGCGAGAATCCTACCTTCAGACTATCTTAACG                         GAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTG
genomic: ACTGGAGCGGCGTATCACCGCGAAAATCCTACCTTCAGACCATCTTAACGgtacttgaaa ... taatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTG
EST: gi|86078770|gb|DR374527.1|DR374527
EST:     ACTGGAGCGGCGTATCACCGCGAGAATCCTACCTTCAGACTATCTTAACG                         GAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTG
genomic: ACTGGAGCGGCGTATCACCGCGAAAATCCTACCTTCAGACCATCTTAACGgtacttgaaa ... taatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTG
EST: gi|125292435|gb|EL306520.1|EL306520
EST:     ACTGGAGCGGNGTATCACCGCGAAAATCCTACCTTCAGACCATCTTAACG                         GAGTTGGAGATGGGTCTAAGAGAATCA
genomic: ACTGGAGCGGCGTATCACCGCGAAAATCCTACCTTCAGACCATCTTAACGgtacttgaaa ... taatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaggaattatcatgatggcgatcccaaatactaattagtatttataatgtgtagGAGTTGGAGATGGGTCTAAGAGAATCAAGTGCAAAATGGAAAATTGTGGTGGGTCACCATGCTATAAAGAGTGCTTCCATTCATGGGAATACCAAAGAGC
                             tactaat  putative branch site (score: 1)
                          aaatactaattagtat  TA-rich tract