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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttaactcttctattaagcaatcatagtaacttataactaacccgcttcataacaatacataagtctttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG

Basic information

species Arabidopsis thaliana
transcript AT4G37930.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 7
----------------gttcttaactcttctattaagcaatcat--agtaacttataactaacccgcttcataacaatacataagtctttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG
                 |  ||  ||| | | |    ||||  |  | | | ||  |  | |    || | | ||| | | | | |   || || ||     |||||||||||||||||   |||||| |||||||| ||||| ||||| ||||||||||| |||||  |  | |||||||||| ||||||  | |||
attatctaggatatttttcattgcctcatatctctttcaattgtgaaattatttcaagatgaatttctgc-tgaca-tgcttgatttgctacttctg---cacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCAAGTGCATATGCGCGTCTTTATGACTATGACCGCATGCGGAAG

upper sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
----------gttcttaactcttctat--taagcaatcatagtaacttataactaacccgcttcataacaatacataagtc-tttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG-------
          ||  ||     || |||  ||| ||    | |  |   || ||     | | | |         ||   || |||  |    || |  || |||||||||| |||  |||||| |||||||| |||||  |||||||||||||||| |||||| |  | ||||| |||| ||| ||  | |||       
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT

upper sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G135283_T03 (Zea mays), 3'ss of exon 7
----------gttcttaactcttctat--taagcaatcatagtaacttataactaacccgcttcataacaatacataagtc-tttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG
          ||  ||     || |||  ||| ||    | |  |   || ||     | | | |         ||   || |||  |    || |  || |||||||||| |||  |||||| |||||||| |||||  |||||||||||||||| |||||| |  | ||||| |||| ||| ||  | |||
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctatgcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAG

upper sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------------------------------------------------------gttcttaactcttctattaagcaatcat-agtaacttataactaacc-cgcttcataacaat-------acataagtctttaattttga--tttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG
                                                                                             | | || |   || | |  ||| || || | |  | | |  |||| |  || |   |    |       |  |||    | ||||| ||  |||||||||||||||||| ||   ||||| ||||||||||||||| || |||||||| ||||| |||||| |    || |||||||| || ||  | |||
gtactaactgcaaaccattagttgtggtcctgtataatgctcttatgcatgtacatccttttgatgtatatccttggataatatttttgatgtgattttgaggattgtttctagctatgatcactctccttttcctaaacatgcgttgaagttgtgagtctaatttaacagatcaatttggaaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCCAGTGCCTATGCTCGCCATTACGACTATGCTCGTATGCGCAAG

upper sequence: AT4G37930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------gttcttaactcttct----attaagcaatcatagtaacttataactaacccgcttcataacaatacataagtctttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG
             |   || | | | |     |||| | || | ||| |  || |  || ||    |   ||||  |    |      || | ||  |   ||||||||||| || || || || ||||| ||||| ||||| || |||||||| |||||||||||  |    || ||||| || |||||  |  ||
gcgcagtttcgttgcagttgattttcccgaagattatgaaaac-taggagtttttttctgacagattctctaacttttttca---tcatattctttttccccagATGGAGAAGAGCGCAACACTCTTCAGACCAAAGTTGATAGTCGCTGGTGCTAGTGCTTATGCCCGCCATTACGACTACGCTCGCATGCGCCAG

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|152033809|gb|BP816571.2|BP816571
EST:     GACGAGAGCAGTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGGTGGTGCA
genomic: GACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|124714045|gb|EH805447.1|EH805447
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCTAAAATT
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCC-AAAATT
EST: gi|124773932|gb|EH864061.1|EH864061
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAA
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAA
EST: gi|124917174|gb|EH991048.1|EH991048
EST:     ACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGAT
genomic: ACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGAT
EST: gi|125308836|gb|EL322921.1|EL322921
EST:     AGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: AGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|124820802|gb|EH905668.1|EH905668
EST:     TCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: TCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|124968889|gb|EL042817.1|EL042817
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTG
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTG
EST: gi|86042971|gb|DR338726.1|DR338726
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|124925326|gb|EL003323.1|EL003323
EST:     CGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: CGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|116443767|gb|EG486359.1|EG486359
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|124748865|gb|EH838995.1|EH838995
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCT
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCT
EST: gi|125224619|gb|EL238704.1|EL238704
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGC
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGC
EST: gi|125271397|gb|EL285482.1|EL285482
EST:     AATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTG
genomic: AATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTG
EST: gi|124973312|gb|EL046952.1|EL046952
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTG
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTG
EST: gi|116428932|gb|EG471524.1|EG471524
EST:     CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: CAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
EST: gi|125252124|gb|EL266209.1|EL266209
EST:     TCGACTACGATCAG                         ATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA
genomic: TCGACTACGATCAGgttcttaact ... tgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttataactaacccgcttcataacaatacataagtctttaattttgatttgcagATGGAGAAAAGTGCTACTCTTTTCAGGCCAAAATTGATTGTTGCTGGTGCAAGTGCTTATGCTAGATTGTATGACTATGCCCGCATCAGAAAG
                         aatacataagtcttta  TA-rich tract