Sequence
atgc intronic sequence ATGC exonic sequenceTGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaaaagtttttctcatttttttctgtgaactaataatagagaacacttaaaaccagcggcttagatatgaacaacttttacaattgtaatatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G09560.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G09560.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G05320.1 (Glycine max), 5'ss of exon 8
TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaaaagttttt-ctca----tttttttctgtgaactaataatagagaac---acttaaaaccagcggctta--gatatga------acaacttttacaattgtaat-atgcag
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TGATAAGAAGAGCACCTCACGAGTTCAAGATTGCTTGTTTAGAGgtaactgccagaacacaaaaccatgccactgtgatgta-taacagggaatgttattggaaggcatcttcttatcgacattataatacatatggcctaaaattattgttatgcag
upper sequence: AT3G09560.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G19730.1 (Glycine max), 5'ss of exon 8
TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaa------------aagtttttctcatttttttctgtga--actaataatag-agaacacttaaaaccagcggcttagatatgaacaacttttacaattgtaatatgcag
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TGATAAGAAGGGCACCTCACGAGTTCAAGATTGCTTGTTTAGAGgtaactgccacaacacaaaaccatgtcactgtgatatataacagggaatgttattggaaggcttcatcttaccgacattataatacatatggcctaaattattgttatgcag
upper sequence: AT3G09560.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA19G35930.1 (Glycine max), 5'ss of exon 10
TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaaaagtttttctcatttttttctgtgaactaataatagagaacacttaaaaccagcggcttagatatgaacaacttttacaattgtaatatgcag
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TAATAAGAAGGGCACCTCATGAGTTCAAGATTGCTTGTCTAGAGgtaa----tttccaaaacacacgc----aacttagaagtgccatcaaatgcatttatcatact-gacttga-cacatgttctgataatgttttgcagMapped 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|116396577|gb|EG439169.1|EG439169EST: TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAG GATATCAGGAAACTCTTCCCAACGGATTACAACCCGTTCTATGCCGGATTC
genomic: TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaaaagttt ... taatatgcagGATATCAGGAAACTCTTCCCAACGGATTACAACCCGTTCTATGCCGGATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATAAGAAGAGCACCTCATGAGTTCAAGATCGCATGTTTGGAGgtaaaagtttttctcatttttttctgtgaactaataatagagaacacttaaaaccagcggcttagatatgaacaacttttacaattgtaatatgcag
- - AAGAAG
- - - - AGAGCA
- - - - - - - - - - - - - - - - - - - TTGGAG