Sequence
atgc intronic sequence ATGC exonic sequenceGGATTAACGATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTGCAAAGATATTCCGTGGAAAAGATACAAGTCTCTTGTACTGTCAAgtaagtttacatgttgtgctcatgaaatttactgtcaagttagatacaagtctctactcagtactctctactgtcaagtaagtttagatgttttgctgatgaaattaactgttgtttttactgataagtttatttccttttatttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01230.2 |
intron # | 8 |
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 9
lower sequence: LOC_Os06g49140.1 (Oryza sativa), 5'ss of exon 8
GGATTAACGATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTGCAAAGATATTCCGTGGAAAAGATACAAGTCTCTTGTACTGTCAAgtaagtttacatgttgtgctcatgaaatttactgtcaagttagatacaagtctctactcagtactctctac-tgtcaagtaagtttagatgttttgctgatgaaattaactgttgtttttactgataagtttatttccttttatttgtag
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GCATTGACAATTGTGACTCACGTACTTAAAGTTGGTGGGAAATTTGTTGCGAAGATTTTCCGTGGAAAAGATACAAGTCTGTTGTATTGCCAGgtga--tcatagcttctgttttagctttctacttct--gtt---tctgaatcttgactgacaaagatatatgcatcatcagcgtctgtgttccttatctgtcgtgtt-------------------------------------------
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 5'ss of exon 8
GGATTAACGATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTGCAAAGATATTCCGTGGAAAAGATACAAGTCTCTTGTACTGTCAAgtaa--gtttacatgttgtgctcatgaaatttactgtcaagttagatacaagtctctactcagtactctctactgtcaagtaagtttagatgttttgctgatgaaattaactgttgtttttactgataagtttatttccttttatttgtag
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GGTTTAACAATTGTTACTCATGTGCTTAAAAAAGGTGGAAAATTTATTGCAAAGATATTTCGGGGAAAAGATACTAGTCTCCTTTATTGCCAGgtaatgaaatacttgctcaattcccaatttttggaattaa-ttaatctcatttgatttgtcaagtggttttaatatgaa--aacctcgcttgacattcatgtg------------------------------------------------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|164169138|gb|ES006860.1|ES006860EST: TTATTGCAAAGATATTCCGTGG-AAAGATACAAGTCTCTTGTACTGTCAA CTGAAATTGTTTTTCCCAACCGTAACTTTTGCGAAACCGAAAAGCAGCCGC
genomic: TTATTGCAAAGATATTCCGTGGAAAAGATACAAGTCTCTTGTACTGTCAAgtaagtttac ... ttatttgtagCTGAAATTGTTTTTCCCAACCGTAACTTTTGCGAAACCGAAAAGCAGCCGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATTAACGATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTGCAAAGATATTCCGTGGAAAAGATACAAGTCTCTTGTACTGTCAAgtaagtttacatgttgtgctcatgaaatttactgtcaagttagatacaagtctctactcagtactctctactgtcaagtaagtttagatgttttgctgatgaaattaactgttgtttttactgataagtttatttccttttatttgtag
- - - - - - - - - - - - - - - - - - - - - - - - GCAAAG