Sequence
atgc intronic sequence ATGC exonic sequenceAGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactgcttatctgtttatttcaagatgcaaatgcttcatgcaatctgactgtgattgtatatgttataccatcacag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g65940.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G100454_T03 (Zea mays), 5'ss of exon 6
AGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactgcttatctgtttatttcaagatgcaaatgcttcatgcaatctgactgtgattgtatatgttataccatcacag
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AGGGCTGCGATTTCTACACGAGGAATGTCGTGCTGGTCCAATCATTCATCGCGATTTGCGTCCAAGCAATGTACTCTTGACGCATGACTTTGTTCCTATGgt------gaga---------tttagtaactaggtatcgatacatgtctagatgcaaatgtattctaaattctgattatag----aagtgctgt-ctttcacag
upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G100454_T01 (Zea mays), 5'ss of exon 8
AGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactgcttatctgtttatttcaagatgcaaatgcttcatgcaatctgactgtgattgtatatgttataccatcacag
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AGGGCTGCGATTTCTACACGAGGAATGTCGTGCTGGTCCAATCATTCATCGCGATTTGCGTCCAAGCAATGTACTCTTGACGCATGACTTTGTTCCTATGgt------gaga---------tttagtaactaggtatcgatacatgtctagatgcaaatgtattctaaattctgattatag-----------------------
upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA13G09340.1 (Glycine max), 5'ss of exon 2
AGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactg-------cttatctgtttatttcaa--gatgcaaatgcttcatgca-atctgactgtgattgtatatgttataccatcacag
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AGGATTGCGTTTTCTACATGAGGAATGTCGTGGAGGTCCTATCATTCATCGTGACATGAGACCAAGCAATATACTCCTCACTCATGATTTTGTTCCCATGgtgaaatcttcattctcttttggcaattgatggggatgtcatacctattccttttacttggtcgttataaaagatgggtgtacgttactaattgaattatgcatacaaatgcag
upper sequence: LOC_Os01g65940.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA06G12620.1 (Glycine max), 5'ss of exon 2
AGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactgcttatctgtttatttcaagatgcaaatgcttcatgcaatctgactgtgattgtatatgttataccatcacag--
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GGGATTGCGTTTTCTACATGAGGAATGCCGTGGTGGTCCTATTATTCATCGGGACATGCGACCAAGCAATATCCTTCTCACCCATGATTTTGTTCCCATGgtaaggtagcacaagttaaggttcatggatagtgtatgaaacagttttggtttgacaacattc------acattactcagcgtatgtttggtttactattactagtMapped 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|29682553|gb|CB678828.1|CB678828EST: GGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATG CTTGGGGACTTTGGTCTTGCAAAATGGAAGGCTAGCAATGCTTCTATCCAT
genomic: GGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctgga ... accatcacagCTTGGGGACTTTGGTCTTGCAAAATGGAAGGCTAGCAATGCTTCTATCCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGGCTGCGTTTTCTACACGAAGAATGTCGTGCTGGTCCAATTATTCATCGGGATTTGCGCCCAAGCAATGTACTTTTGACACATGACTTTGTTCCTATGgtaatctggagaatactagatctcagtcactgcttatctgtttatttcaagatgcaaatgcttcatgcaatctgactgtgattgtatatgttataccatcacag
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