Sequence
atgc intronic sequence ATGC exonic sequenceCGAAAAAGATACATTTCCTAGTGATGAACTCGAGGTTACAGCATGGACAGAAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAGgtaaaacccgcacaagtgtgtactgtaatcttattgccccctccattcaaaacataactcttgaagtcttgtaaacattgtccacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G25220.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g50880.1 (Oryza sativa), 5'ss of exon 7
CGAAAAAGATACATTTCCTAGTGATGAACTCGAGGTTACAGCATGGACAGAAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAGgtaaaac-ccgcacaa-gtgtgtactgtaatcttattg-----ccccctccattcaaaacataactc--ttgaa-gtcttgtaaacattg-tccacag--
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TGAGAAGGATAGCTTCCCACATGATGCCCTGGAAATTACTGCTTGGACAGACGATGGGCTGATCATGGCTGCTCGCCACAGGAAGTACAAACATATACAGgttcacttccacgcgatatacttttaacaatttcattcaaatcatcacctcaattgggatgtaatccggtcaaacatattatatgaataaatgcaaaata
upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv01s0011g06260.t01 (Vitis vinifera), 5'ss of exon 9
CGAAAAAGATACATTTCCTAGTGATGAACTCGAGGTTACAGCATGGACAGAAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAGgtaaaac-ccgcacaagtgtgt----actgtaatcttattgc---cccctccattcaaaaca--taactcttgaagtct--tgtaaacattgtcca-cag
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TGAAAAGGATACCTTTCCCAATGAAGCACTTGAGATTACAGCATGGACAGAGGATGGACTGATAATGGCTGCCCGTCACAAAAAATATAAGCATCTGCAGgtaagatattggattgctggttcccaattaaaatttcaatactaacccattaatcctgtatgagcagtttctactgtttattcttattgttgcctttcagMapped 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|116410668|gb|EG453260.1|EG453260EST: AAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAG GGAGTCCAATTTCATCCGGAGAGTATTATAACAACTGAGGGCAAGACAATT
genomic: AAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAGgtaaaacccg ... ttgtccacagGGAGTCCAATTTCATCCGGAGAGTATTATAACAACTGAGGGCAAGACAATT
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
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CGAAAAAGATACATTTCCTAGTGATGAACTCGAGGTTACAGCATGGACAGAAGATGGTCTGGTAATGGCTGCCCGTCACAGAAAGTACAAGCATATACAGgtaaaacccgcacaagtgtgtactgtaatcttattgccccctccattcaaaacataactcttgaagtcttgtaaacattgtccacag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGATG