Sequence
atgc intronic sequence ATGC exonic sequenceGATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttctcttcctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19010.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g05160.1 (Oryza sativa), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgt---taagctagcgagcaataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttctcttcctttcag-----------
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GATTTGCACCAAGTTATAAAGGCCAACGATGACTTGACTCCTGAACACTACCAGTTTTTCTTGTATCAGTTGCTCCGAGGACTGAAATATATACACACAGgtaattgatttattttcacatgaaagatggttcttttgcatt--tctttcagtagcctgctgtgaagaatgttctatttaaataaataaatttgctaaggac
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgtta--agctagcgagca-ataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttctcttc--ctttcag---------
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GATTTGCACCAAGTTATAAAGGCCAACGACGACTTGACTCCAGAACACTACCAGTTTTTCCTCTATCAGTTGCTTCGAGGATTGAAGTACATACATACAGgtaattggtatgttctcacatgaaaatttgttccttttcattg--tcaaaaacatggttcagggggtggtcttcttgcaagtgaaggcataagacatctgtg
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G38510.1 (Glycine max), 5'ss of exon 1
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttct-----cttcctttcag------------------------------------------------
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GATTTACATCAGGTCATCAAAGCAAATGATGATTTGACTCCAGAGCATTATCAGTTTTTTCTCTATCAGCTTCTTCGAGGCTTGAAGTATATACACACAGgttatgatcttta-tatttagctagtttttatttttagattcctaatgcagctttttcatagttaatgttttattataaaagctaattattgaatcacatgatcattgtggctgattttaaactttttaatgggtttgtag
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G02220.1 (Glycine max), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttct-----cttcctttcag------------------------------------------------
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GATTTACATCAGGTCATCAAAGCAAATGATGATTTGACTCCAGAGCATTATCAGTTTTTTCTCTATCAGCTTCTTCGAGGCTTGAAGTATATACACCGAGgttatgatcacta-tatttagctagtttttatttttagattcctaaggcagctttttcatagttaatgttttattataagagctaattattaaatcacatgatcattgtggctgattttaaactttttaatgggtttgtag
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaata---aaatttcattgattagtataagtt-tatgattatctttctgaaaatactttttttttctcttcctttcag
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GATTTACATCAGGTCATCAAAGCTAATGATGATCTGACACCAGAACATTACCAGTTTTTCTTGTATCAGCTTCTACGAGGCTTGAAGTATATACACACAGgtta-gttagggaatctttcttagattgcttgctgtagcatatattatatgatca-ctgtggctgattttgaatttcttaatggacttgtag
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G28120.1 (Glycine max), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaata---aaatttcattgattagtataagtttatgattatctttctgaaaa-----tactttttttttctcttcctttcag------------------------------
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GATTTACATCAGGTCATCAAAGCTAATGATGATCTGACACCAGAGCATTACCAGTTTTTTTTGTATCAGCTTCTTCGAGGCATGAAGTATATTCATACAGgtta-gttagggaatctttcttagattgcttgctgtagcatatatatatatttgttattgcataaaactagtagcaaaattatatgatcactatggctgattttgaacttcttaatggacttgtag
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataa---aatttcattgattagtataagtttatgattatctttctgaaaatacttttttttt-ctcttcctttcag-------------------------------------------------------------------------------------
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GATTTACACCAGGTTATTAAAGCAAATGATGATTTGACTCCAGAACATTATCAATTTTTTCTTTATCAGCTTCTGCGAGGCTTGAAGTACATACACACAGgttatatgatgctacaatattgtattttaactttttggccttggtttagcatactttattacaatctaattagcttgtgcagatggcatgagtaataatgtttataacttgaagtgggtgcccggatattcagtattccggtcctgattttgccatatttctttaattcttttgtag
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataaaatttcattgattagtataagtttatg-attatctttctgaaaatactttttttttct--cttcctttcag-------------
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GACCTTCACCAAGTGATCAAAGCCAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCCCTCAAGTATATCCATACAGgt--aggtgccaaagtttggagtggaatt-acttccattcggttatgtactaactttgtgcag-tatttctattcccgggttttcgttgggtttcgttggctat
upper sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgtta-------agctagcgagcaataaaatttcattgattagtata-agtttatgattatctttctgaaaatactttttttttctcttcctttcag----
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GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagcttaMapped 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|125197513|gb|EL212467.1|EL212467EST: AGTTTTTCCTTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAG CTAATGTCTTTCATCGGGATCTT
genomic: AGTTTTTCC-TCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctag ... ttcctttcagCTAATGTCTTTCATCGGGATCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgttaagctagcgagcaataaaatttcattgattagtataagtttatgattatctttctgaaaatactttttttttctcttcctttcag
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