Sequence
atgc intronic sequence ATGC exonic sequencegttctgcaacaatttctcccctcttgtttgtaaactatttgagtattgacacttaaagatttttgctttcatcatcattgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08040.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os02g19510.3 (Oryza sativa), 3'ss of exon 5
----------------------------------------------------------------gttctgcaacaatttctcccctcttgt----ttgtaaac----tatttgagtattgacacttaaagatttttgctttcatcatcattgcttc------agTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
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gtaactgagacggacatcttgcattgcttaaatttggtgcatcaatcaactataccctgtaacagataaacagttaatcttgcattccggtgaactggtagtcactttttcttaatgtaaatatgcaattattgcttctgaattcatagaagcttttcatatagTTTTCAGATAAATTCACTATCATGCTATTCCATTATGATGGCCGGACTACTGAATGGGATGAATTTGAGTGGTCTAAAAGAGCTATCCATGTGAGTGTCA
upper sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
gttctgcaacaatttctcccctcttgtttgtaaactatttgagtattgacac-ttaaagatttttgctttcat---catcattgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
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-----------gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
upper sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G006507_T02 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------gttctgcaacaatttctcccc----tcttgtttgtaa--actatttgagtattgacacttaaagatttttgctttcatcatcattgcttc---agTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
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gtaactggcagactgccatcttacctgcttaaccttggtgcaccaaacttctgagctttgggactgatgtacactagatctgcatcgtgattaaacttgtagtcactttatttgaaatgagcatgcagtcctaccaatttcatgtatgtttcttttatagTTTTCAGACAAATTCACTATTATGCTGTTCCATTATGATGGTCGGACTACTGAGTGGGATGAATTTGAGTGGTCTAAAAGAGCAATCCATGTGAGTGTCA
upper sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G119725_T02 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------gttctgcaacaatttctcccc----tcttgtttgtaaac----tatttgagtattgacacttaaagatttttgc---tttcatcatcattgcttc---agTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
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gtaactgacagactggcaccttacctacttaagctcagtgtatcaaacttctgaactctgggactgatgtacagtagatccacatcgtgattaaacttgtagtcactttatttgaa-atgagcatgtagtcctttcttccaatttcacgtaagtttcttttatagTTTTCAGACAAATTCACCATTATGTTGTTCCATTATGATGGTCGGACTACAGAGTGGGATGAATTTGAGTGGTCTAAAAGAGCAATCCATGTGAGTGCCA
upper sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 3'ss of exon 6
--gttctgcaacaatttctcccctcttgtttgtaaactattt-gagtattgacacttaaagatttttgctttcatcatcattgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
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gtcatccacatgagccgttccataattttcatttatttattttgattgtttctggatattgagtttcagatgcttatgttttgtggcagTTTTCTGAGGATTTCCAAATTTTGCTTTTTCACTATGATGGTCGAACAAGTGAATGGGATCAATTTGAGTGGTCAAAAACTGCAATTCATGTTAGTGCAAMapped 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|164222412|gb|ES001763.1|ES001763EST: TTACAGTTGGATTTGAGCAGAGAAACAACATTAATGCAGCTGTTAAGAAG TTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAA
genomic: TTACAGTTGGATTTGAGCAGAGAAACAACATTAATGCAGCTGTTAAGAAGgttctgcaac ... attgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactatttgagtattgacacttaaagatttttgctttcatcatcattgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA
tattgac putative branch site (score: 2)
ttgcttc putative PPT
acttaaagattttt TA-rich tract