Sequence
atgc intronic sequence ATGC exonic sequenceGAATTGGAGAAGGCGGTTCTCTATGCTGTTGGAAATACTCTTGTCTGCGACGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgttcttgtttccttctttagatgtaatttactcatatatttgcactaaagttggcgttactttctacataacttgatttctgttatttctag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G54670.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G18470.1 (Glycine max), 5'ss of exon 9
GAATTGGAGAAGGCGGTTCTCTATGCTGTTGGAAATACTCTTGTCTGCGACGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgt---tcttgtttccttct-ttagatgtaatttactcatatatttgcactaaagttggcgttactttct-acataacttgatttctgttatttctag
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TCCTTGGAGAAGGCAATTCTCTTTGCTGTTGGGAATACTCTTGTTTGTGATGATCTTGAGGAGGCCAAAATTTTAAGCTGGAGCGGTGAGAGGTTTAAAGgtaagaagaccttttttctttctattatctacaggtgctttaccttcttactgacatgccattagagcttaatgatagtagttggatgttgttccatttt-
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G04300.2 (Glycine max), 5'ss of exon 9
GAATTGGAGAAGGCGGTTCTCTATGCTGTTGGAAATACTCTTGTCTGCGACGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgta---tgttcttgtttccttct-ttagatgtaatttactcatatatttgcactaaagttggcgttactttct-acataacttgatttctgttatttctag
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TCCTTGGAGAAGGCAATTCTCTTTGCTGTTGGGAATACTCTAGTTTGTGATGATCTTGAGGAGGCCAAAATTTTAAGCTGGAGCGGTGAGAGGTTTAAAGgtaacaagaccttttttctttctattatctacagattctttgccttcttactgacatgccattagagcttaatgatagtacttggatgttgttccatttt-
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 5'ss of exon 3
GAATTGGAGAAGGCGGTTCTCTATGCTGTTGGAAATACTCTTGTCTGCGACGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgttcttgtttccttctttagatgtaatttactcatatatttgcactaaagttggcgttactttctacataacttgatttctgtta--tttctag------------
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GCCTTGGAGAAGGCTATTCTATTTGCTGTTGCCAATACTTTAGTATGCGATGACCTTGAGGAAGCTAAGGTTCTTAGCTGGAGTGGAGAGAGGTTTAAAGgtgaattaatgtttatctacttcattttctttttgttgt-tggtgtcattcatgtggagcttatatattctgtatcattgctaatgaagagttttttgtgcatttaatagMapped 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|164144038|gb|ES072341.1|ES072341EST: CGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAG TTGTGACTGTTGATGGTATATTAC
genomic: CGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgttctt ... ttatttctagTTGTGACTGTTGATGGTATATTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATTGGAGAAGGCGGTTCTCTATGCTGTTGGAAATACTCTTGTCTGCGACGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgttcttgtttccttctttagatgtaatttactcatatatttgcactaaagttggcgttactttctacataacttgatttctgttatttctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA