Sequence
atgc intronic sequence ATGC exonic sequenceGTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G06600.3 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattctatttctacatttgcactcggttgtc-ttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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GTGGAAGGGACAATTCAACAGCTATTTGAAGGTCATCATATGAATTATATTGAGTGCATTAATGTTGACTACAAATCTACAAGGAAAGAATCATTCTATGgta-ggtgaca-aggtga--aatctggaccttgtttctttattgttttt--atctattcatcatgattgtagatttatcatgtattttcgtaactcttttctag--------------------------------------
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 3
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgta--tagtaatat-acattatca-ctctttgtcttattctatt--tctaca----tttgcactcggttgtcttattctatttatacaa---ttgcactctgttgtct-----tattctatcacaccaactttattgtcatgttctaatcttatggcag----------------------
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GTGGAAGGAGCAATACAAAAATTGTTCGAGGGTCACCATATGAATTATATCGAGTGTATTAATGTTGAGTCTAAATCTACCAGGAAAGAGTCATTCTATGgtaggtaacaaggggaaaatatgaacttgttttgatgttttattagttgacaaaagtcaataccatacttgtttacttcttttccacaggtcttgcactc-gatgtctatgaacatgttttggtgttttattagttggcaagagtcaatatcatacttgtttgtttacttcttttccacag
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgta--tagtaatatacattatcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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GTGGAAGGAACAATTGAACAATTATTCGAAGGCCACCACATTAATTACATTGAGTGCATTAACGTGGACTATAAATCTAACAGAAAAGAATCATTTTATGgtaggttctgtcatttaattgtacttgcaggaaaatcatatatttatatgatatataaataatagttgcctatgtcatgactggcag--------------------------------------------------------
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattctatttctacatttgcactcggttgtctt--attctatttatacaat-tgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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GTGGAGGGGACAATACAGCAGTTGTTTGAAGGGCACCATATGAACTACATTGAGTGCATCAATGTGGACTACAAATCTACAAGAAAGGAATCATTTTATGgtat--tcatttttggt-tcaagcttacattctttgtagctaggcattcgctattaatgggaatgcatgatacttgaactatatatgtcctaatataaaaagaaaggaaaaaaaatgaactgcatttttatttttgcatggcag
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattct-atttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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GTCGAGGGCACAATCCAGCAACTGTTCGAAGGGCATCACATGAACTACATAGAGTGCATCAATGTTGATTATAAATCAACACGGAAAGAGTCTTTCTATGgtacgactatgca-gttgaagttagaagcaggatggagactttgacaatcaagaatgattct-ttattttgtttc----attgaacat--ctgtcttagaaagaggag----------------------------------
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatat--acattatcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgt-catgttctaatcttatggcag
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GTGGAGGGGACGATACAAAATCTTTTTGAAGGCCATCATATGAATTATATCGAATGCATCAATGTCGATTTTAAGTCCACTCGGAAGGAGTCCTATTATGgtacacttcttctgacttgattgactctaatgttgtcccgagacaacactgg---gcatgtggcttatcatggtcgggctttgttgatcttccgtacgctgctag-atttcactttaataatatgtgaagtaaacgt-tggcag
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 5
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattctatttctacatttgcact-cggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
|| || || || ||||| || ||||| || ||||||||||||||||| ||||| ||||| ||||| || | || || || || || ||||| ||||| ||| | | | | || || || | || | || | | | |
GTTGAAGGTACCATACAGCAGCTTTTCGAAGGCCACCATATGAATTATATTGAATGCATCAATGTGGACTACAAGTCCACTCGAAAGGAATCTTTTTATGgtttgtttctgcattttcgggaatttcaggcaatattgttaacccgttggaataacag------------------------------------------------------------------------------------
upper sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 7
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacatta-tcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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GTTGAAGGAACGATTCAACAGCTTTTTGAGGGTCATCATATGAACTACATCGAATGCATCAACGTCGATTACAAATCTACGCGGAAAGAGTCATTTTATGgtatgttgatattgagtagtctgggcttctcacaacgtgtgt-tacag----------------------------------------------------------------------------------------------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|125082103|gb|EL143084.1|EL143084EST: TGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACG ACCTTCAGCTGGATGTTAAAGGCTGCAAGGATGTTTATGCTTCTTTT
genomic: TGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaat ... cttatggcagACCTTCAGCTGGATGTTAAAGGCTGCAAGGATGTTTATGCTTCTTTT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGAGGGAACAATACAACAACTTTTTGAGGGCCACCATATGAATTACATTGAGTGCATAAATGTAGATTTTAAATCTACACGGAAAGAATCATTTTACGgtatagtaatatacattatcactctttgtcttattctatttctacatttgcactcggttgtcttattctatttatacaattgcactctgttgtcttattctatcacaccaactttattgtcatgttctaatcttatggcag
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