Sequence
atgc intronic sequence ATGC exonic sequenceGATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26530.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G41500.1 (Glycine max), 5'ss of exon 5
GATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcag
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GATTGCAAAGGATCCTCGATTTGAGAGAATACTCTGTACTCATAAAGGGATGTATGCTGATGACTGTCTTGTTGAGAGAGTTACTCAGgtgcgatttt--------tttaaagtatctgaatgttcaaaagcatctgggag-----caatttaatgattaagatgaatttacgatttccaggcgggatgaaaaataacctt-
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G38690.2 (Glycine max), 5'ss of exon 7
GATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcag
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GATTGCCAAGGATCCTCGATTTGAGAGAATACTATGTACTCATAAAGGGACCTATGCTGATGACTGCCTTGTTGAGAGAGTTACTCAGgtgt-------gatatatttttatgagctaaatgctaaggagcatctgggagca------atttgattattaagattaattaatgatttttcaagctggatgataaatagtct-
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G31740.1 (Glycine max), 5'ss of exon 7
GATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcag
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GATTGCCAAGGATCCTCGATTTGAGAGAATACTATGTACTCATAAAGGGACCTATGCTGATGACTGCCTTGTTGAGAGAGTTACTCAGgtgt-------gatatatttttatgagctaa-atgcttaggagcatctgggag-caatttgtttattaagattaattaatgatttttcaggctggatgataaatagtct-----
upper sequence: AT1G26530.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv15s0046g02690.t01 (Vitis vinifera), 5'ss of exon 6
GATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccg-gttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttc----tttcctctgtaattaatcag
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GATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAGgtatgatttggattctgcaccatgtttaca--tgtgtattatctc------gggcttctatatacattgatcccaagctatattcattttgtgtaaaaatttccgttg-----------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|116464334|gb|EG506926.1|EG506926EST: TACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAG CATAAATGCTTCATAGTAGCTACTTGTGATAGAGTTCTAAAGCGAAGGATT
genomic: TACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctc ... aattaatcagCATAAATGCTTCATAGTAGCTACTTGTGATAGAGATCTAAAGCGAAGGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAGgtaatgcctcagctccggttttgtttaccatcgtgtcttgtttctctaagaagatgctctgtttatgcatgtagtctaatcttctgtttgtttctttcctctgtaattaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT