Sequence
atgc intronic sequence ATGC exonic sequenceTCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G15290.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA08G22850.1 (Glycine max), 5'ss of exon 19
TCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgat----tgatttgcttctggttc----attcgcatacaaatctcagacgaatatt-aatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacata--catgtttgttttctccatttgtctctcacag
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TCTTTCATTGATAGATGCATTTTCTCTGAGTGTGCAACATGAGCAAACTACACTAAAGATACTTCAAGCAAAGCTTGGATCAGAAGATCTTCGTACACAGgtcatttccttttctgatagtagtgctagaatacgtcaaagaatattggtctaggattgaactacgcattggcaaactatggggattgatagattgatttgtttaatgttaccattttcatgaaagttttttccccaatgcag
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G03250.1 (Glycine max), 5'ss of exon 21
TCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgattgatttgcttctggttcattcgcatacaaatctcagacgaatatt-aatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacag-----
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TCTTTCATTGATGGATGCATTTTCTCTGAGTATGCAACATGAGCAAACTACACTAAAGATACTTCAAGCAAAGCTTGGATCAGAAGATCTTCGTACACAGgtcatttcctt--ttctgattg--tagtactagaattctggtctaggattgaactaagcattggcaaaatatgggggttgatagatggttttggctaatgttaccatttttcatgaaaggtttttttttccaatgcag
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv09s0002g07530.t01 (Vitis vinifera), 5'ss of exon 20
TCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgatt-gatttgcttctggttcattcgcatacaaatctcagacga-atattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacag
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ACTGTCTCTGATGGAAGCATATTCTCTCAGTGTGCAACATGAGCAGACTACACTCCAGATACTCCAAGCAAAACTTGGGCCAGAGGATCTCCGTACTCAGgtaccaagattttcctaatcttgacatttagttagttccttgtctctgaaataatattttaattgcaaag-aatatag----ccccttaaattatgagtactgta-----------------------------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|116431561|gb|EG474153.1|EG474153EST: CACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAG GATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAG
genomic: CACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgattgatt ... tctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTCTCTTTCATGGAAGCACATTCATTGAGTGTGCAACATGAACAAACTACACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG