Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGAGATTTTGGTTTAGCAAGATGGCAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGGgtaacaaaatttataactaaatcatcattctcactctagagtaatttctcaactactttctgtgtttcttgttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G55200.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G55200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g51190.2 (Oryza sativa), 5'ss of exon 5
-----------------------GTTGGAGATTTTGGTTTAGCAAGATGGCAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGGgtaacaaaatttataactaaatcatcattctcactct------agagtaatttctcaactac-tttctgtgtttcttgttttag----------
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AAGTATCGTCATATCGTGTGCAGGTCGGAGATTTTGGGTTGGCTAGATGGCAGCCTGATGGAGACATGGGTGTCGAAACAAGAGTAATTGGCACATTTGGgtaagtgctcagccatacaatccatcaatcctgtcctttgtgaggtgtaacttgtgaaaaaggcatatctgagaccattttcggccatgtgcag
upper sequence: AT1G55200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 7
GTTGGAGATTTTGGTTTAGCAAGATGGCAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGGgtaa----caaaatttataactaa-----atcatcattctcactctagagtaatttctcaactactttctgtgtttcttgttttag
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GTTGGAGATTTTGGGTTGGCACGATGGCAACCTGATGGTGACATGGGTGTTGACACGAGAGTAATTGGAACATTCGGgtaaatattgagatttgcaactgtgtgttgtaaccatgtgcagttttgggca-cttattaacgaggctctgcttggctgtctgcagMapped 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|86087674|gb|DR383433.1|DR383433EST: CAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGG CTATTTAGCTCCAGAGTATGCTCAAAGTGGACAAATCACAGAGAAAGCCGA
genomic: CAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGGgtaacaaaat ... cttgttttagCTATTTAGCTCCAGAGTATGCTCAAAGTGGACAAATCACAGAGAAAGCCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGAGATTTTGGTTTAGCAAGATGGCAGCCTGATGGAGAGCTAGGTGTAGACACGCGTGTGATAGGAACTTTCGGgtaacaaaatttataactaaatcatcattctcactctagagtaatttctcaactactttctgtgtttcttgttttag
- - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - AGAGCT