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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgactttttttaagtgttgcattttgtttgtatgtttttgaggatactcaatgttttagtttccatgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC

Basic information

species Arabidopsis thaliana
transcript AT3G14100.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os07g42380.1 (Oryza sativa), 3'ss of exon 5
-------gtaagttttgactttttttaagtgttgc---attttgtttgtatg-tttttgaggatactcaatgttttagtttccatgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC
        || ||||    ||| |   ||| ||     | ||| ||  |||   |||||   | ||    |   ||   |  | |   ||||||  |||||||| ||||||||||| ||||| || |||||||| |||||| |  |||||| |  |  ||| ||||  | ||||||||| ||
gttgatactatgtttgctttttataccagtattctcagaattttttgatataacttttggcaagacatggtaaattttatcactt---ttgcagACCATTTCAATATTTTTGTTGGTGATCTTAGCCCAGAGGTTACTGATTCCGCATTATTTGCATTCTTCTCTGGATATTCCAGTTGCTC

upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G01230.1 (Glycine max), 3'ss of exon 5
--------------------gtaagttttgactttttttaagtgttgcattttgtttgtatgtttttgaggatactcaatgttttagtttccatgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC
                     || |   |   ||  |   |    || ||    ||||     |||||   |   |  |   |||  ||    | | |||||||||||| ||||||||||||||| ||||| ||||| ||||| |||||||| ||  | | |  | |||||||||||| | ||| ||||||
ataaaaataagcttaaacaaataggacctatgttcatactaagtctg-atcccctttgggaacttttggctaaggtatagccttt--ttcttttaatttgcagGTCATTACAACATTTTTGTTGGCGATCTAAGTCCTGAGGTTACTGATGCTACGCTGTTTGCATGCTTTTCTGTCTATCCCACTTGTTC

upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G04640.1 (Glycine max), 3'ss of exon 5
------------gtaagttttg-actttttttaagtgttgcattttgtttgtatgtttttgagg----atactcaatgttttagtttccatgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC
             |  |   |    |  |  || |  |     ||||      | |   | ||     ||| |  |||  ||  || |  | | |||||||||| | ||| || |||||||| ||||| ||||| ||||| |||||||| || || | |  | |||||||||||| | ||||||||||
aagcttaaacaaatgggccctatgttcatactaggcctgatcctttgggaacttttggctaagatattatattatatggcttgtttcctttaatttgcagGTCACTACAATATATTTGTTGGCGATCTAAGTCCTGAGGTTACTGATGCTACGTTGTTTGCATGCTTTTCTGTCTATCCCAGTTGTTC

upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 3'ss of exon 5
---------------------gtaagttttgactttttttaagtgttgcattttgtttgtatgt--ttttgaggatactca------atgttttagtttc-catga-gttgc--agGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC
                      || |  |    ||   |    || ||||   || || ||||   |||||    |  |||      ||||| || | |   |||| ||||   |||||| ||||||||||||||||| |||||||| || ||||| |||||||| ||||| | |  | |||||||||| ||| ||||||||||
gttggtttctgtagtttaattctatgcataagtttcactcttatgctgcaaactgattctatggagttttggcattcatcattgttgatgttgtattcttgtatgatgttgtgtagGTCACTTCAACATTTTTGTTGGTGATCTCAGCCCTGAGGTTACTGATGCTACATTGTTTGCATGCTTTTCTGTTTTTCCCAGTTGTTC

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|125036037|gb|EL108306.1|EL108306
EST:     TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTC
genomic: TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTC
EST: gi|164080017|gb|ES142040.1|ES142040
EST:     ACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
genomic: ACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
EST: gi|124763185|gb|EH853315.1|EH853315
EST:     GAAGATACATCAA                         GTCATTTCAACATTTTTTGTTTGGAGATCTCAGTCCAGAGGTCACTGATGC
genomic: GAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACA-TTTTTG-TTGGAGATCTCAGTCCAGAGGTCACTGATGC
EST: gi|164156024|gb|ES090214.1|ES090214
EST:     CACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
genomic: CACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
EST: gi|125256540|gb|EL270625.1|EL270625
EST:     TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACT
genomic: TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACT
EST: gi|124929517|gb|EL007055.1|EL007055
EST:     GTATGCCACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
genomic: GTATGCCACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAA
EST: gi|124707430|gb|EH798832.1|EH798832
EST:     TCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCAC
genomic: TCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCAC
EST: gi|125281343|gb|EL295428.1|EL295428
EST:     GTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCA
genomic: GTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCA
EST: gi|125207379|gb|EL222333.1|EL222333
EST:     TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA                         GTCATTTCAACATTTTTGTTGGAGA
genomic: TATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAAgtaagttttg ... tgagttgcagGTCATTTCAACATTTTTGTTGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgtttgtatgtttttgaggatactcaatgttttagtttccatgagttgcagGTCATTTCAACATTTTTGTTGGAGATCTCAGTCCAGAGGTCACTGATGCAACATTATATCAAAGCTTTTCTGTCTTTTCCAGTTGTTC
                                       tttccat  CT-rich tract
          tatgttttt  TA-rich tract