Sequence
atgc intronic sequence ATGC exonic sequenceCAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07250.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os09g35730.1 (Oryza sativa), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg
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TAATAACTACATCTCTGTTGGAGCCTCTGGAGCTTTATTTGGACTGCTTGGATCAATGCTTTCTGAGCTTATTATGAACTGGACTATTTATTCCAACAAGgttagta--aatgagatagatgc-----acatacatttt-cactattcagttgcttgatgtttgt--tttgatcaagctaatcc-actcttgcag-----
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G033937_T01 (Zea mays), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg-
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GAATAACTACATCTCTGTTGGTGCTTCTGGAGCTTTATTTGGCCTGCTTGGATCCATGCTTTCTGAGCTACTCATGAACTGGACTATATACTCCAACAAGgccagtac-aattaacagat------aaatatatactttattttatccagctgcttgatagtcat----ttagctcgtatacttaatt--tgctcttgcag
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaac--atacaaatcactccat-catgttggctcatgtttctgatctgagcatatgtaccagat-tgctgcactcctg---------------------------------------------------------------------------------
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CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgt-acctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G38290.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaata---ccaatctgcttttcatttcaaacatacaaatcactccatcat----gttggctca--tgtttctgatctgagcatatgt--accagattgctgcactcctg-----------------------------------------------------
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CAGAGACCACATCTCTGTGGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaagtcaccctgatttatgggtttcttcaatacaagagacacctcaaatcttcttcattttggctcattgcaatcaattagttttataccttcaaaatagattaacattgtacgagttaacttttgtttttcactctttttgcag
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G26610.2 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg----
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TAGAAACAATATCTCTGTTGGTGCTTCTGGTGCTCTATTTGGACTTCTTGGTGCAATGCTTTCAGAACTTATCACAAACTGGAGTATTTATACCAATAAGgtgagtataaa---gtcattggttcccatcctatttttgttttctgtgtgtttgttagttcttttgaaaaggaaa-atgattaatgttatgaaaagattgacaa
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G32150.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGg--ttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctca--tgtttctgatctgagcatatgt-accagattgctgcactcctg
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TAGAAACAACATTTCTGTTGGTGCTTCTGGTGCTCTTTTTGGACTTCTTGGAGCAATGCTTTCAGAACTTATCACAAATTGGAGTATTTATACTAATAAGgtgttggttcccatcctatttttgtattctgtgtgtttgttagttctttttaaaaggaaaattattaatgttatgaaaagattttgacaaattcctgtat-----
upper sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv16s0100g00640.t01 (Vitis vinifera), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg
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TCAAAATAGCATCTCTGTTGGGGCTTCTGGTGCTCTTTTTGGGCTTTTGGGAGCAATGCTTTCAGAGCTTATTACAAACTGGTCCATGTATACAAACAGGgtgag---caatctagcccactgttgtcttactccttaccctttgagataattagccttgtttgttgcttttgtag------------------------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|125237331|gb|EL251416.1|EL251416EST: GCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAG TTTAAGTGGTTAGCAAGAG
genomic: GCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaatacca ... tcgtccccagTTTAAGTGGTTAGCAAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccagattgctgcactcctg
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