Sequence
atgc intronic sequence ATGC exonic sequenceCGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgttattttcgttttccttctttgcttagaatttgatctgtgatcctctgaaaattgagttgctctagtttctcctatacattttgttctagtttctcctcagtgcttctgggtttttggaaattaaactgttatttgttgtatactgaatacgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20650.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20650.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G042398_T01 (Zea mays), 5'ss of exon 8
CGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgt-tattttcgttttccttctttgcttagaatttgatctgtgatcctctgaaaattgagttgctctagtttctcctatacattttgttctagtttctcctcagtgcttctgggtttttggaaattaaactgttatttgttgtatactgaatacgcag
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AGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAATGCCTGATGCCAATGTCATTATCAAAAGGCTTCGAGAATgtatgttactgtaaacaaccattgtc---atcttgcattggttaactttgtcactgtatttgctggaagctgtgtgacaagt---atataaactcttctgctatggtcag-----------------------------------------------
upper sequence: AT3G20650.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G41190.1 (Glycine max), 5'ss of exon 7
CGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgttattttcgttttccttctttgcttagaatttgatctgtgatcctctgaaaattgagttgctctagtttctcctatacattttgttctagtttctcctcagtgcttctgggtttttggaaattaaactgttatttgttgtatactgaatacgcag
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CGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAATGCCTGATGCCAATGTGATAATCAAGAAGCTTAGAGAAGgtt---------tttctctcatgttca-attctgat-tattattcttttaaattaaatttagt--agttgatgatgtccaatg-acacgaattgaactgcgatg-----gcgtttttca-------------------------------------
upper sequence: AT3G20650.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 5'ss of exon 7
CGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgttattttc-gttttcct--tctttgcttagaatttgatctgtgatcctctgaaaattgagttgctctagtttctcctatacattttgttctagtttctcctcagtgcttctgggtttttggaaattaaactgttatttgttgtatactgaatacgcag
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CGACGTGCTTTGGCCAATGTATCAGCATTACTTCGTCCAGGAGGCATCTTCATCGGAACGATGCCAGATGCCAATGTTATCATCAAAAAGCTTAGAGAAGgttttatcctgtgctcatgatattctccttggtcttgattt--catcatttcatacc---atttctttagcaaatataaaatgcattag--aaatgtgcatttgatg----------------------------------------------------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|86084647|gb|DR380406.1|DR380406EST: TATCGGAACAATGCCAGATGCCAATGTTATTATNNNNNNNCTCAGAGAAG CTGAAGGTTTGGAGATTGGTAATAGTGTTTACTGGATTCGTTTTGGTGAAG
genomic: TATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgttattttcg ... gaatacgcagCTGAAGGTTTGGAGATTGGTAATAGTGTTTACTGGATTCGTTTTGGTGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAATGCCAGATGCCAATGTTATTATAAAAAAACTCAGAGAAGgttattttcgttttccttctttgcttagaatttgatctgtgatcctctgaaaattgagttgctctagtttctcctatacattttgttctagtttctcctcagtgcttctgggtttttggaaattaaactgttatttgttgtatactgaatacgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG