Sequence
atgc intronic sequence ATGC exonic sequenceGTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01230.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g49140.1 (Oryza sativa), 5'ss of exon 6
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaaaacagtag-ataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaa------acgccttttacaa--tttggtttgcag---
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GTTATTAGGCATTTTGATGGATGCAAAGCAGATTTGGTTGTCTGCGATGGTGCTCCTGATGgtaagatagtgatgtcccttacttgcatc-ccatttatttatggcattagactacatgtatgtttcatgcttattatgtgctttgggttattacag
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G31350.1 (Glycine max), 5'ss of exon 2
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaa--aacagtagataaagtgtc----tgtctcgccgttcaatat-----atacgttatgctata-aaaaacgccttttacaatttggtttgcag----
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GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTGGTTGTGTGTGATGGTGCTCCTGATGgtaaataatgctcaatttaacttgataatgtcttcacacacaatattagagaagtgcaatttcacacgaaaattatttttatgaaaagctacataagaag
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G31380.1 (Glycine max), 5'ss of exon 7
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaa--aacagtagat--aaagtgtctgtctcgccgttcaatatat-------acgttatgctata-aaaaacgccttttacaatttggtttgcag----
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GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTGGTTGTGTGTGATGGTGCTCCTGATGgtaaagaatgctcaatttaacttgataatctcttcatacaccatattagagaagtgcaatttcacacgaaaattatttttatgaaaagctgcataagaag
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G07970.4 (Glycine max), 5'ss of exon 7
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaaa-acagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgcc-ttttac---aatttggtttgcag-----------
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GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATGgtaaagaaaatgctcagtttagctccataatctctttatacactatttatgcttagagaaatgcaatttcacgcgaaaactatttatgaaaagcaacata
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 5'ss of exon 6
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgtta-tgctataaaaaac--gccttttacaatttggtttgcag----------------
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GTCATTAGGCATTTTGATGGATGCAAGGCTGACCTGGTTGTGTGTGATGGTGCTCCTGATGgttaggcaacatatattgttttcaacttcatggtttatgcttctgtttctaccagcagtggtttgtttttcttaagttgatcagtttctgtgatgatttgcagMapped 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|164201021|gb|ES019084.1|ES019084EST: TGGTGCTCCAGATG TTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAG
genomic: TGGTGCTCCAGATGgtaaaacagt ... tggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGgtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcag
- - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG