Sequence
atgc intronic sequence ATGC exonic sequenceGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagccacaaactatttcttactctttatgtcaaaaaatatctgagaacatagaagatacagaaatgtacttgtttgatattggatatatactttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08415.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G42600.1 (Glycine max), 5'ss of exon 8
GCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagccacaaactatttcttactctttatgtcaaaaaatatctgagaacatagaagatacagaaatgtacttgtttgatattggatatatactttttgcag
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GCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTAGTGGTCCACTGgtaagttcttcacaaatgcattagaatttg-attgtacctttcttgcggtataacttgacatatgtgtgttatcaattgtgcttttaactg-gcctccacca-
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G24430.1 (Glycine max), 5'ss of exon 6
GCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagcc---acaaac-tatt----tcttactctttatgtcaaaaaatat--ctgagaacatagaagatacagaaatgtacttgt--ttgatattggatatatactttttgcag--------------------------------------------------------------------------
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GCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGATTTCTGGAAAGAATATGGGGAATCTATTGGTTTTCGTTACGTAGCTAGTGGTCCACTGgtaagctctttgcaaatgcattagaatttgattttacctttcttacggtagtacttgacatatgtgtgttatcattttgtgcttttaactggcgtccacaataggccaacttcagttgataagttgcttaattatctgatcatcatatcattaaacttatggattgttactgccctctgtgttttgcag
upper sequence: AT5G08415.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv10s0071g01020.t01 (Vitis vinifera), 5'ss of exon 6
GCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagccacaaactatttcttactctttatgtcaaaaaatatctgagaacatagaagatacagaaatgtacttgtttgatattggatatatactttttgcag-------
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ACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTAGTGGACCCCTGgtaaattcc----ctgtttcat----tttgctttaaatgatgatcatgagcat-gaataagcatcta-gaactgctcacaggttggacaactgggctaggaagccatgtcMapped 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|86085291|gb|DR381050.1|DR381050EST: AAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTG GTAAGATCTTCATATAGAGCAGGAGAGCTTTTTGTTAAGACAATGGTGAAA
genomic: AAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagccac ... ctttttgcagGTAAGATCTTCATATAGAGCAGGAGAGCTTTTTGTTAAGACAATGGTGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAAGTGGTCCACTGgtaaagccacaaactatttcttactctttatgtcaaaaaatatctgagaacatagaagatacagaaatgtacttgtttgatattggatatatactttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA