Sequence
atgc intronic sequence ATGC exonic sequenceAGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGGAGCTTATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAAgtaatgtttttcaattgttcttgctgtctcattcatcatcattcacaaactcattatctttcaaacgttgattgtatatgtttgcttctccactgattttaaaacgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50500.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S116_98V6.1 (Physcomitrella patens), 5'ss of exon 7
AGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGGAGCTTATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAAgtaatgtttttcaattgttcttgctg---tctcattcatcatcattca-caaactcattatctttcaaacgttgattgtatatgtttgcttctccactgattttaaaacgcag
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GGATGTGTGGTCGTGCGGTGTGACCTTGTACGTCATGTTGGTGGGAGCATACCCATTCGAGGATCCCTATGACCCAAGGAATTTCAGGAAAACCATTGGAgtgagttcgcataagttttgatggtaacatttggtgtttcgtggtttaaccgattcat--tcattcaca-gcaactcacggattgttgaaactgtgtttggcttggtttgcag
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S218_59V6.1 (Physcomitrella patens), 5'ss of exon 7
AGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGGAGCTTATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAAgtaatgt------ttttcaattgttcttgctgtctcattcatcatcattcacaaactcattatcttt--caaacgttgattgtatatgtttgcttctccactgattttaaaacgcag
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AGATGTGTGGTCTTGCGGTGTTACCTTGTACGTGATGTTGGTTGGAGCATATCCTTTCGAGGATCCTGAAGACCCAAGGAATTTCAGGAAAACCATTGGGgtaagatcacctcttttgggtttaagtttttgtgcagcgtgatgtcgtctgcgcattcgtcgaattcgataaaccttcacggaatgcctaagctgtg--actggctt-ggtttgcagMapped 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|125293698|gb|EL307783.1|EL307783EST: ATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAA AGAATCCTTAGTGTCACA
genomic: ATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAAgtaatgtttt ... taaaacgcagAGAATCCTTAGTGTCACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGTATGGTCTTGCGGTGTAACATTATATGTAATGTTGGTTGGAGCTTATCCATTCGAGGATCCACAGGAGCCACGAGATTATCGAAAGACAATACAAgtaatgtttttcaattgttcttgctgtctcattcatcatcattcacaaactcattatctttcaaacgttgattgtatatgtttgcttctccactgattttaaaacgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT