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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcccaatacccttttctagtgttttactgatattcaaactgcaagtaaataactttttgactttcatcattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGCCTCTGTTTCTTTACAACTACACCACTCACCAGCTTCATGGTATCTTTGA

Basic information

species Arabidopsis thaliana
transcript AT3G27090.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27090.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 2
------------------------------------------------gtaatt--tcccaatacccttttctagtgttttactgatattcaaactgcaagtaaataactttttgactttcatcattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGCCTCTGTTTCTTTACAACTACACCACTCACCAGCTTCATGGTATCTTTGA
                                                |||| |  ||   | |  |  || |  |   |  |  |||| | || |         |  |||     || |     || | |||| || ||  || ||||  | || || || || || || || |||||  ||||||| || || || ||||||||||||||||||||||||||  | |||||
gtatgtctttttttttggatcttgccatatcccttgaggaatcaaatggtaactgttctggaaaatcagttttgat-cctagcgtatatactaatttggtaatggtgccttaagatctgttgctcttctgcagGATTGCCAGCACGATATCGTGATTCAGTCCGGGCAATTACTCCTGGCCTGCCTCTTTTCCTCTATAACTACACCACTCACCAGCTTCATGGGGTATTTGA

upper sequence: AT3G27090.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G06100.1 (Glycine max), 3'ss of exon 2
--------------gtaatttcccaatacccttttctagtgttttactgatattca--aactgcaagtaaataactttttgactttcatcattgttc---agGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGCCTCTGTTTCTTTACAACTACACCACTCACCAGCTTCATGGTATCTTTGA
              || |||     | | |  ||| |     || | || |||| |  || | |      || |||   |  ||||||   || ||    |||||| |||||||| ||  |||| |||||| | |||||||||||||| || ||  | |||||||| ||||| || ||||| ||||| |||||||| |||||
gtgtgtgcttattagttattaaatgacatctatttttctatcttgaatgttattaatcaaatacttcatgatgactgact--ctttcaatgttttttgatagGTTTGCCTCCAAGGTATCGAGATTCTGTTAGGGCTATAACACCTGGGTTACCATTATTTCTTTATAACTATACTACTCATCAGCTGCATGGTATTTTTGA

upper sequence: AT3G27090.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0068g02040.t01 (Vitis vinifera), 3'ss of exon 2
-------gtaatttcccaatacccttttctagtgttttactgat--attcaaactgca--agtaaataacttt---ttgactttcat---cattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGCCTCTGTTTCTTTACAACTACACCACTCACCAGCTTCATGGTATCTTTGA
        |   || |  ||| |   || ||  | |    ||||  ||| |   | |   | |||||   |||   |||| | || |   ||||  | |||| ||||||||||||| |||||||||||||| ||||||||||| || || ||| ||||||| || |||||||| ||||||||  | |||||||| |||||
ataacacatctgtttctgatatcaaattatatggataatgtgatgtatttattttccttcaataaatccttttgtgttgattatcgtgctcatttgttagGTCTACCTCCAAGATATAGAGACTCTGTTCGGGCTATAACACCAGGCTTACCTTTGTTTCTCTATAACTACACTACTCACCAATTGCATGGTATTTTTGA

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|124811864|gb|EH896730.1|EH896730
EST:     TGTTTGCAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTG                         GTTTACCTCCAAGATAC
genomic: TGTTTGCAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTGgtaatttccc ... cattgttcagGTTTACCTCCAAGATAC
EST: gi|164192414|gb|ES028420.1|ES028420
EST:     CAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTG                         GTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGC
genomic: CAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTGgtaatttccc ... cattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGC
EST: gi|125188215|gb|EL203169.1|EL203169
EST:     ACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTG                         GTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAA
genomic: ACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTGgtaatttccc ... cattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAA
EST: gi|125113458|gb|EL164268.1|EL164268
EST:     TGTTTGCAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTG                         GTTTACCTCCAAGATACAGAGACT
genomic: TGTTTGCAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTGgtaatttccc ... cattgttcagGTTTACCTCCAAGATACAGAGACT
EST: gi|125230184|gb|EL244269.1|EL244269
EST:     TGTTTGCAACAATGATACTATGCAGGAGGATATG-AACGTCACCTCTTTG                         GTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACA
genomic: TGTTTGCAACAATGATACTATGCAGGAGGATATGAAACGTCACCTCTTTGgtaatttccc ... cattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactgatattcaaactgcaagtaaataactttttgactttcatcattgttcagGTTTACCTCCAAGATACAGAGACTCTGTTCGAGCTATAACACCTGGATTGCCTCTGTTTCTTTACAACTACACCACTCACCAGCTTCATGGTATCTTTGA
                                      ctttcatc  CT-rich tract
                    aagtaaataacttttt  TA-rich tract