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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatgatatcttctaaagtttgatactgagatgaaattggattttggatcttcag

Basic information

species Arabidopsis thaliana
transcript AT1G15120.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os11g06340.1 (Oryza sativa), 5'ss of exon 3
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagt---tacttgaat-tatgttattttgc-tgtttc------atcatatgatatcttctaaagtttgatac-tgagatgaaattggattttggatcttcag--------------------
   || ||||||||| |  |    |||||| |||| || || || |||||||| || ||||| ||||| |||  ||||||||||||||||||||||   | | ||  | | ||  || | || | | |       | || ||||| | |    ||| |    |  |   |   |  |  ||     || ||| |                    
AAGTGCGTCAAGAGAGTGGAGAAGGATGATACTGGGCATAAACACTGCACTGGGCAATATTTCGACTATTGGTCATGCATTGACAAATGTgtaagtatctgcatgtgtgtgtgcaatatcgcatatctggaaccaaacaaatgatttatggagaagctctgcatatataagctaggttaataacatattttctgtggggtgcatctgcaggtag

upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatgatatcttctaa--agtttgatactgagatgaaattggattttggatcttcag
  ||| ||||||||| |  |   ||||||| |||| ||||| || |||||||| || || ||||| ||||||  |||||| ||||||||||||||| ||| |     |   |  ||||   || | | | ||  ||  || |   ||      ||  |  |   || |||   || |||| |||
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagt-actcgt----tcccagcttgc-actttaccgtttgtcattgtcaagccagagaagaaccaattttttat-ggaacatgcatctgcag

upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G122039_T01 (Zea mays), 5'ss of exon 2
----------GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatgatatcttctaa--agtttgatactgagatgaaattggattttggatcttcag
            ||| ||||||||| |  |   ||||||| |||| ||||| || |||||||| || || ||||| ||||||  |||||| ||||||||||||||| ||| |     |   |  ||||   || | | | ||  ||  || |   ||      ||  |  |   || |||   || |||| |||
CTGTTATCAGAAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagt-actcgt----tcccagcttgc-actttaccgtttgtcattgtcaagccagagaagaaccaattttttat-ggaacatgcatctgcag

upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G122039_T07 (Zea mays), 5'ss of exon 3
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatgatatcttctaa--agtttgatactgagatgaaattggattttggatcttcag----
  ||| ||||||||| |  |   ||||||| |||| ||||| || |||||||| || || ||||| ||||||  |||||| ||||||||||||||| ||| |     |   |  ||||   || | | | ||  ||  || |   ||      ||  |  |   || |||   || |||| |||    
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagt-actcgt----tcccagcttgc-actttaccgtttgtcattgtcaagccagagaagaaccaattttttat-ggaacatgcatctgcaggtag

upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G05620.1 (Glycine max), 5'ss of exon 3
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatca-tatgatatcttctaaagtttgatactgagatgaaattggattttggatcttcag
|| ||  | || || || || |||||||||||||| || || || |||||||| || |||||||| || |||   || ||||||||||||||||||       ||||| ||  || | |  |  || |  ||    || | |   ||||| |  ||  || | ||   | |   |   | |||
GCGTGCATTAAAAGGATACATGGTGATGATTCTGGGCAGAAACACTGCACTGGACAATATTTTGATTATTGGTCTTGTATTGACAAATGTgtaagt-------attatttt--ttagttagtaaataagcatcgagtcatttg--gtttgcttgtgt-ataacatcataatcctgtaatgcag

upper sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S491_11V6.1 (Physcomitrella patens), 5'ss of exon 3
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatg-atatcttctaaagtttgatactgagatgaaattggattttggatcttcag--------
||||| || ||| | ||  | |  |||||   ||| || ||||||||||||||||||||||| ||||| |||   ||||||||  |||||||||||   |  |    |   || ||  | ||  |   | |   ||   |  | |  |   |  | | ||||  |  | |||  ||  || |         
GCATGCGTGAAGCGCATTGAGGAGGATGAGAATGGTCAAAAGCATTGCACTGGCCAGTATTTCGACTATTGGGGCTGCATTGATCAATGTgtaagtggttctaccatttccatcttcattttgtacagtgtctgtacaatgcataagtctct-ttcacatgatttaagctttaagacattgaatgaagcaa

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|125271328|gb|EL285413.1|EL285413
EST:     CATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAG
genomic: CATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAG
EST: gi|164000571|gb|ES056006.1|ES056006
EST:     ATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAGCTGGAG
genomic: ATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAGCTGGAG
EST: gi|124962031|gb|EL036483.1|EL036483
EST:     AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTT
genomic: AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTT
EST: gi|125269432|gb|EL283517.1|EL283517
EST:     AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAAC
genomic: AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAAC
EST: gi|164021827|gb|ES181099.1|ES181099
EST:     ACTGGCCAGTA-TTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTG
genomic: ACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTG
EST: gi|124996430|gb|EL068699.1|EL068699
EST:     CACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTGC-AAAC
genomic: CACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAAC
EST: gi|124712260|gb|EH803662.1|EH803662
EST:     AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAAC
genomic: AGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAAC
EST: gi|124963446|gb|EL037781.1|EL037781
EST:     CATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAACTAAAAAGAAAAGAGGTGAAGCTGGAG
genomic: CATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAGCTGGAG
EST: gi|164191369|gb|ES008970.1|ES008970
EST:     CAATGCATTGACAAATGT                         GTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAGCTGGAG
genomic: CAATGCATTGACAAATGTgtaagttact ... ggatcttcagGTTGCACCAAAGCTGTTTGCGAAACTAAAATGAAAAGAGGTGAAGCTGGAG