Sequence
atgc intronic sequence ATGC exonic sequenceTAAGAAATTTCTTGAGCTAATGAGAGGCAAGACACTAGCTTTTATAGGCGATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAGgcaagtgttttcttatactttgtgtcactatatagagcttctttctttttccaagagtttgttttgtctgtatgattaaacttttgaatgatgttgttgttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51640.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51640.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G012734_T01 (Zea mays), 5'ss of exon 2
TAAGAAATTTCTTGAGCTAATGAGAGGCAAGACACTAGCTTTTATAGGCGATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAGgcaag-tgttttcttatac-tttgtgtcactatatagagcttctttctttttccaagagtttgttttgtctgtatgattaaacttttgaatgatgttgttgttttcag
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AAGGAAGTTCTTGGAGTTGATGAGAGGCAAGACACTTGCGTTCGTTGGGGATTCAGTTGCTCGGAATCAGATGGAGTCCCTCCTTTGCATTCTGTGGCAAgtgagatgcctcctgctacgttcagaatcttacatttgcattatagtgtaattaagataaaaccattacctgccaaat---acttttatgtgac-tagttttct----
upper sequence: AT5G51640.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G096169_T02 (Zea mays), 5'ss of exon 3
---TAAGAAATTTCTTG-AGCTAATGAGAGGCAAGACACTAGCTTTTATAGGCGATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAGgcaag-tgttttcttatac-tttgtgtcactatatagagcttctttctttttccaagagtttgttttgtctgtatgattaaacttttgaatgatgttgttgttttcag
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ATGCAAGGAAGTTCTTGGAGTTGATGAGAGGCAAGACACTTGCGTTCGTTGGGGATTCAGTTGCTCGGAATCAGATGGAGTCCCTCCTTTGCATTCTGTGgcaagtgagatgcctcctgctacgttcagaatcttacatttgcattatagtgtaattaagataaaaccattacctgccaaat---acttttatgtgac-tagtt--------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|86082679|gb|DR378438.1|DR378438EST: ATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAG GTAGAAACTCCGGTTAACCGTGGGAACAGGAAGATGCAGAGATGGTATTTC
genomic: ATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAGgcaagtgttt ... ttgttttcagGTAGAAACTCCGGTTAACCGTGGGAACAGGAAGATGCAGAGATGGTATTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGAAATTTCTTGAGCTAATGAGAGGCAAGACACTAGCTTTTATAGGCGATTCAGTAGCTCGTAATCAGATGGAGTCCATGATGTGTCTTCTTTGGCAGgcaagtgttttcttatactttgtgtcactatatagagcttctttctttttccaagagtttgttttgtctgtatgattaaacttttgaatgatgttgttgttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA