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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT

Basic information

species Arabidopsis thaliana
transcript AT1G75630.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os11g06890.2 (Oryza sativa), 3'ss of exon 1
---gtaagatttcagatccctctcttgtcaat-ttccccgaattgaatcacccaatgtttttgattcgattcg-------aatccgatttgatgt-tttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
    |  ||  || |||   |        ||  ||    |  ||| ||   |   | ||  ||    |||| |         |   ||| ||| | || |||| ||||| || |||||||||||||||||||| || || || || ||||| ||||| |||||| | || || || || ||||| || || || || || ||
ccgattggagatcggatttgtggggaaaaaaagttgggagctttggatt--ctgttcttgatggggggatttgcttatttgctttcattcgatctgttgcagGCATGGGTGCGGCGTACGGGACGGCGAAGAGCGGCGTCGGCGTGGCGTCCATGGGCGTGATGCGCCCGGAGCTCGTGATGAAGTCCATCGTGCCCGTGGT

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
-----------gtaagatttcagatccctctc-ttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgtttt-cagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
            |  | | |  |||  |     | | ||   |   |   |   |    |   |  |    |  |  |||   |     |||||    | |||| ||||| |||||||||||||| |||||||| || || || || ||||||||||| |||||| | || || || || ||||| || || || || || ||
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttc---ttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G177005_T01 (Zea mays), 3'ss of exon 1
-------gtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaat--gtttttgattcgattcgaatccgatttgatgtttt-cagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
        |  | | ||||         ||    |   |   |   |   ||   |     |||  ||| | |  |   ||     |||||      |||| ||||| || ||||||||||| |||||||| || || || || ||||||||||| |||||| | || || || || ||||| || || || || || ||
tggtccgatcgggtgtcagtctgtcggattccagaaagcggtgggctttttcggtcgggcagttgctgactaggctgttattttgcttgatccggcgcagGCATGGGCGCCGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G24220.1 (Glycine max), 3'ss of exon 1
-----------gtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
            | | ||   |||    | | || |   ||| |       ||| |   |   |||||   |   |        || |||  | ||||||||||||||||| |||||||| || |||||||| || || || |||||||||||||| |||||||| || || || || ||||||||||| || || |||||
gtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

upper sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA02G05630.2 (Glycine max), 3'ss of exon 1
---------------gtaagatttcagatccctctcttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
                | | ||   |||    | | |     |||||||  ||  |       |   |||||   ||  |        || |||  | |||||||||||||| || |||||||| || |||||||| || || || |||||||||||||| |||||||| || || || || ||||||||||| || || |||||
gtaactaactaactcatcaaatcaaagagttttttttgtctcatttcccgaaaccg------tcgtcgttttatcttaaaccgtgtgtcgtttttgttttttcagGTATGGGCGCGGCGTACGGCACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgttttcagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT
                                              tgttttc  CT-rich tract
              aatgttttt  TA-rich tract