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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcag

Basic information

species Arabidopsis thaliana
transcript AT1G75630.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os05g01560.1 (Oryza sativa), 5'ss of exon 1
--ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttcagatccctctcttgtcaatttccccgaattgaatc--acccaa--tgtttttgattcgattcgaatccgatttgatgttttcag
  || |  | | |  | |  ||| | || ||    |||||||||||||| || || ||||||||||| ||||||||||||||| | || ||||| |||||||||||| |  || |||   | |||  || |||| | |      |||  | |  |  ||   ||||  |    || || | |              
CGACGGCGAGCGACCACC--ATGTCCTCCTCCACCTTCAGCGGCGATGAGACCGCCCCTTTCTTCGGCTTCCTCGGCGCCGCCTCCGCCCTCGTATTCTCCTgtaagctccca-atcttcccctt--cactttctcggggccagatctgatctgagatgaggttgacacacgacgcatgcaag-------------

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os11g06890.2 (Oryza sativa), 5'ss of exon 1
ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcga----ttcgaatccgatttgatgttttcag----------
  ||     | ||   ||| |   || || |  |||||||||||||| || ||||| |||||||| ||||||||||||||| | || ||| | ||||| |||||  |     ||||||||    ||   ||||||  ||  |   |     |||       || |    ||| ||||  | | |   | ||             
GGAGAAGGAAGAGGAGCAAAGATGTCGTCGGTGTTCAGCGGCGATGAGACGGCGCCCTTCTTCGGCTTCCTCGGCGCCGCCTCCGCCCTCATCTTCTCATgtaatctccgccatccctct----tcctcttcccccgatcaagcgattaggtgtagaaagctccagtttttccaatcaaagtcgccatctttttctttccccca

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM5G893252_T01 (Zea mays), 5'ss of exon 1
--ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaaga---tttcagatc------cctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcag-
  ||   || |      || |||||  | ||    ||||||||||| || || ||||| |||||||| ||||||||||||||||| |||||||| ||||||||||||      |||||||      |||| ||| ||  | ||    |   |    | ||||   |         | ||  |||   |  | || |  |   
CCACCTCCACCTCCA--CCCATGGCGGCCTCCACCTTCAGCGGCGACGAGACGGCGCCCTTCTTCGGCTTCCTCGGCGCCGCCGCCGCGCTCGTCTTCTCCTgtaagcacccatcagatctccctccctcccttctctgtctctttcaccagccggatccaaccatccattcctcactcccatcacctcggctggtgcctag

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G101020_T01 (Zea mays), 5'ss of exon 1
ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgttttt---gattcgattcgaatccgatttgatgtt--ttcag------
|  | || ||   ||     |   || || |  |||||||||||||| || || ||||||||||| ||||| |||||| ||||||||||||| ||||| |||| |    | |   ||||     |||  |        ||   |  |    | | |||    ||| || | |        |||  |    | | |      
AGCGGCAGCAGTAAGGGGGAGATGTCGTCGGCGTTCAGCGGCGATGAGACCGCCCCTTTCTTCGGCTTCCTTGGCGCCTCCGCTGCGCTCGTCTTCTCATgtacgtgcgccgcctcctcgtcc-tcacgtgttatactttcggttgcattgtttctttccgaatttgagtggggaaaaggttggagccgatcccgtccttt

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: AC216067.3_FGT002 (Zea mays), 5'ss of exon 1
ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagattt-------cagatccctctcttgtcaatttccccgaattgaatc--acccaatgtttttgattcgattcgaatccgatttgatgttttcag--
                        || || |  |||||||||||||| || || || |||||||| ||||||||||||||||| || ||||| ||||| |||  |           || |  |||||            | |||       |  |||| | | | | | ||   ||     |||| | ||  || |     
---------------------ATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccgcttccccatactcctcttccactcgcacgctcgagcgattccgtacccgaagctctagttttttttttt-cccgaatagagcttctgtttc

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G177005_T01 (Zea mays), 5'ss of exon 1
-ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagat----ttcagatccctctcttgtcaatttccccg---aattgaatc---acccaatgtttttgattcgattcgaatccgatttgatgttttcag-
 ||||  | |     || || |   || || |  |||||||||||||| || || || |||||||| ||||||||||||||||| || ||||| ||||| |||  | |    |||      |   ||| || | || | ||   |   || ||   || ||| | | | | ||   | || ||    ||||   ||||||  
AACAGGAAGCCGGAGGCGAA-GATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGCTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgttccccttcgaccatcctccttttccacttgctcgctcatgcgattccgtactcaaagctctagttttt-tccggataaagtttggatttttcacc

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
--ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaa--gatt--tcagatccc----tctcttgtcaatttccccgaattgaatcacccaatgt--ttttgattcgattcgaat-ccgatttgatgttttcag
      ||  |||| |  ||     |   |  |  ||||||||||| ||||| || |||||||| || |||||||| ||||||||||| |||||||| ||||||||   | |  ||| |||      | | || |   |||     ||||     | ||   ||  ||||   |  |  ||  |  || |||  | |||||||
CGTTTCTCGCCAAACAAACACAAAATGGCT--GCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G05630.2 (Glycine max), 5'ss of exon 1
--ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaa---tgtttttgattcgattcgaatc------cgatttgatgttttcag
   |    | |||| | | ||    |   |  |  |||||||| || ||||| || |||||||| || |||||||| ||||||||||| |||||||| ||||||||      |  ||      |     | ||       |   ||  ||| |    ||  | | ||    |  || |      || |||  | |||||||
TCTCGCCAAACAAAAAACAAAAAAATGGCT--GCCTTCAGCGGTGACGAAACCGCTCCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactaactcatcaaatcaaagagttttttttgtctcatttcccgaaaccgtcgtcgttttatcttaaaccgtgtgtcgtttttgttttttcag

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|125068618|gb|EL134685.1|EL134685
EST:     CGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: CGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|124983176|gb|EL055926.1|EL055926
EST:     CGCCGCCGCTGCGCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: CGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|125017471|gb|EL089740.1|EL089740
EST:     CGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: CGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|125257698|gb|EL271783.1|EL271783
EST:     GCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: GCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|125058786|gb|EL127463.1|EL127463
EST:     TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGT
genomic: TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGT
EST: gi|124718218|gb|EH809620.1|EH809620
EST:     CGCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: CGCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|116455931|gb|EG498523.1|EG498523
EST:     TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
genomic: TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGA
EST: gi|124713064|gb|EH804466.1|EH804466
EST:     TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCT                         GTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGA
genomic: TGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaagatttc ... atgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGA