Sequence
atgc intronic sequence ATGC exonic sequenceTATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaatttagcactaatttgaagcatattttcatgaataatgacaataacaaacaatccgttttttttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01230.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01230.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G07970.2 (Glycine max), 5'ss of exon 8
TATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaatttagcactaatttgaagcatattttcatgaataatgacaataacaaacaatccgttttttttccag
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-----------------------------------------------TTACTGGCCTTCATGACATGGATGAATTTGTACAATCCCAACTCTTACTTGCAgtaagtatttagtttctatcctttt-cttgtttg-cacattttgtcttttttccatctgg-----att----gtacatgttcac--attatcattattgcaaattgggtatgt---------
upper sequence: AT5G01230.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G31350.1 (Glycine max), 5'ss of exon 3
TATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaatttagcactaatttga-agcatattttcatgaataatgacaataacaaacaatccgttttttttccag
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-----------------------------------------------TTACTGGCCTTCATGACATGGATGAGTTTGTACAATCCCAACTCATACTTGCAgtaagtatttagtttctatcctttt-cttgttgtttgcacttttttttttcttatctttttcccatctggatagtacatgttcac--attatcattattgcaa--------------------
upper sequence: AT5G01230.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G31380.1 (Glycine max), 5'ss of exon 8
TATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaatttagcactaatttga-agcatattttcatgaataatgacaataacaaacaatccgttttttttccag
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-----------------------------------------------TTACTGGCCTTCATGACATGGATGAGTTTGTACAATCCCAACTCATACTTCCAgtaagtatttagtttctatcctttt-cttgtt--gtttgcacttttttttttaatcttttttccatctggatagtacatgttcac--attatcattattgcaaat------------------
upper sequence: AT5G01230.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 5'ss of exon 7
TATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaat-ttagcactaatttgaagcatattt-tcatgaataatgacaataacaaacaatccgttttttttccag
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-----------------------------------------------TTACCGGGCTTCATGATATGGATGAATTTGTCCAGTCCCAACTTATTCTTGCGgtgagctgtttaggttcct-tgtaaac-taatcaatgtttcttataagggcaagtcactataatgagtttggatggcaattaccttggatggatacagatgc----------------------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|164117728|gb|ES112689.1|ES112689EST: GTCCAGTCCCAACTCATACTAGCA GGATTTAACGTATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTG
genomic: GTCCAGTCCCAACTCATACTAGCAgtaagtttct ... ttttttccagGGA-TTAACG-ATTGTAACTCATATTCTTAAAGAAGGTGGAAAATTTATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATATACGTTATGCTATAAAAAACGCCTTTTACAATTTGGTTTGCAGTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCAgtaagtttcttatatctatgtatatacatgatcgatatgtcatgtttgaacaaaatttagcactaatttgaagcatattttcatgaataatgacaataacaaacaatccgttttttttccag
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