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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatctgtggtcttctcctgaaacttctttcctgttttattcagtttacattcagtgattctgatagaatacatttggtatcttgcttttgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTTGGAACAAAGCTTG

Basic information

species Arabidopsis thaliana
transcript AT4G35020.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35020.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os02g58730.2 (Oryza sativa), 3'ss of exon 3
gtttgatctgtggtcttctcctgaaacttctttcctgttt---tattcagt--ttacattcagtgattctgatagaatacatttg-gtatcttgcttttgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTTGGAACAAAGCTTG
    |   |    ||||  |    |  |||||| || | |    ||  |||   |    | ||| |  ||| ||   | || |     || |   |||   || | ||||| | |||||| | || ||||||||||||||||| || || || |||||||||||||||||||
----gcaataaaatcttgccgcccactttctttgctctctctccatgaagtaccttagcttagtcaacctgttatcttgcactgacacatatatatttctgttgtcagTGGATACCTGAATTAAGGCATTATGCTCCTGGTGTGCCAATAATTCTCGTTGGAACAAAGCTTG

upper sequence: AT4G35020.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G375002_T03 (Zea mays), 3'ss of exon 3
-----------gtttgatctgtggtcttctcctgaaacttctttcctg---ttttattcagtttacattcagtgattctgatagaatacatttggtatcttgcttttgattctt--agTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTTGGAACAAAGCTTG
                  |     ||||  || |   |   |||  ||   | ||||| | ||||  |||  ||| |   ||    | ||| |    | |   | | | || ||  |||||||||||||| | || || ||||||||||| || ||||| ||||| ||||| ||||| ||||
gcaataatctttccctgcccactttcttgccccggccccggtttaatgcattcttatttattttagcttct-tgacttgcatttcttgcatattacctgtgcatgtcgttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTTGGGACAAAACTTG
















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|86021219|gb|DR316965.1|DR316965
EST:     TCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAG                         TGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGGT
genomic: TCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAGgtttgatctg ... tgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
EST: gi|86021225|gb|DR316971.1|DR316971
EST:     TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAG                         TGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
genomic: TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAGgtttgatctg ... tgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
EST: gi|164151623|gb|ES035572.1|ES035572
EST:     CAAAGCTAGCTATGAAAATGTTTCTAAAAAG                         TGGGCTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
genomic: CAAAGCTAGCTATGAAAATGTTTCTAAAAAGgtttgatctg ... tgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
EST: gi|86021224|gb|DR316970.1|DR316970
EST:     TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAG                         TGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
genomic: TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAGgtttgatctg ... tgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
EST: gi|86021223|gb|DR316969.1|DR316969
EST:     TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAG                         TGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT
genomic: TTGCATTCTCACTTGTCAGCAAAGCTAGCTATGAAAATGTTTCTAAAAAGgtttgatctg ... tgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttacattcagtgattctgatagaatacatttggtatcttgcttttgattcttagTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTTGGAACAAAGCTTG
                                    tcttgctttt  CT-rich tract
                       aatacattt  TA-rich tract