Sequence
atgc intronic sequence ATGC exonic sequenceGAAATCGCTGTGGAAGTACAGAGCGAATCTAAGTGGAAACAATTAGGAGAGTTAGCTATGTCCTCCGGAAAGgtatatatttgtctttgtatttcgtcctaatgttttgtaatgataagagacacaaaataacctttccactaaatggtttatgatttacattatgattctg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52360.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 10
GAAATCGCTGTGGAAGTACAGAGCGAATCTAAGTGGAAACAATTAGGAGAGTTAGCTATGTCCTCCGGAAAGgtatatatttgtctttgtatttcgtcctaatgttttgtaatgataagagacacaaaataacctttccactaaatggtttatgatttacattatgattctg--
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GCAATTGCCATTGAGGCACAAAGTGAGTCCAAGTGGAGGCAGTTAGGAGAGTTAGCTATGTCAACCGGAAAGgtacagctgt-tggatgtattagttacta-tcttctatgagtagtcaatatatattgtgctaatgaagtgggactgttctgccatggcattttagtttcttg
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 19
GAAATCGCTGTGGAAGTACAGAGCGAATCTAAGTGGAAACAATTAGGAGAGTTAGCTATGTCCTCCGGAAAGgtata--tatt---tgtctttgtatttcgtcctaatgttttgtaatgataagagacacaaaataacctttccactaaatggtttatgatttacattatgattctg
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GCAATTGCCATTGAGGCACAAAGTGAGTCCAAGTGGAGGCAGTTAGGAGAGTTAGCTATGTCAACCGGAAAGgtacagctgttggatgtattagttactactccctctgtttcatatt-ataagactttctagcattgcccacattcatatagatgttaatgaatctagacac----
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 19
GAAATCGCTGTGGAAGTACAGAGCGAATCTAAGTGGAAACAATTAGGAGAGTTAGCTATGTCCTCCGGAAAGgtatatat-ttgtctttgtatttcgtcctaatgttttgtaatgataagagacacaaaataacctttccactaaatggtttatgatttacattat---gattctg-
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GTGATTGCTACTGAGGTGCAAAGTGAATCCAAGTGGAAGCAATTAGGGGAGTTAGCTATGTCAAATGGAAAGgtacagctactgggtctatcgtttatcttgca--tgcgcaatgccgcaatctgcg---ttgtccttgtacgctgtggttcagccatgacattttcttaatttttaMapped 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|124862187|gb|EH946624.1|EH946624EST: ATGTCCTCCGGAAAAG CTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTT
genomic: ATGTCCTCCGG-AAAGgtatatattt ... atcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAATCGCTGTGGAAGTACAGAGCGAATCTAAGTGGAAACAATTAGGAGAGTTAGCTATGTCCTCCGGAAAGgtatatatttgtctttgtatttcgtcctaatgttttgtaatgataagagacacaaaataacctttccactaaatggtttatgatttacattatgattctg
- - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagagaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctttcca