Sequence
atgc intronic sequence ATGC exonic sequenceATGGATATCTCTTTTAGAGAGATTTCTACCCAGACAAGTTGCAATTACAAGAGCAAAGCGAGACTGGGAGCTTGACATTGTCTCACGCTATCAGTTAATGgtatttacctatctgtacaactttatgataccacacaaactcgatctaattattttatgtctattcaatttgtaacatacttttcctattcaactccatg...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g57140.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 8
ATGGATATCTCTTTTAGAGAGATTTCTACCCAGACAAGTTGCAATTACAAGAGCAAAGCGAGACTGGGAGCTTGACATTGTCTCACGCTATCAGTTAATGgtatttacctatctgtacaactttatgataccacacaaactcgatctaattattttatgtctattcaatttgtaacatacttttcctattcaactccatg----------------------
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ATGGATATCACTTTTAGAGAGATTTCTTCCTAGACAAGTGGCGATTACCAGAGCAAAGCGAGACTGGGAGCTTGACATCATTTCACGCTTTCAGTTAATGgtatttatctatctcttgaactctat-atttattagtctgtcgatatatttacaatttgcgt-tcacattggtaaagcctcgttagaactctagcttacctgagtactctgtttgattccag
upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G423861_T01 (Zea mays), 5'ss of exon 9
ATGGATATCTCTTTTAGAGAGATTTCTACCCAGACAAGTTGCAATTACAAGAGCAAAGCGAGACTGGGAGCTTGACATTGTCTCACGCTATCAGTTAATGgtatttacctatctgtacaactttatgat-accacacaaactcgatctaattattttatgtctattcaatttgtaacatacttttcctattcaactccatg----------------------
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ATGGATATCACTTTTAGAGAGATTTCTTCCTAGACAAGTGGCGATTACCAGAGCAAAGCGAGATTGGGAGCTTGACATCATTTCACGCTTTCAGTTAATGgtatttatctagctcttgaactttatatttattagtctatcaatatatttacaatttgcgtccac---attggtaaagcctcattagaactctagcttatctgagtactccgtttgatttcagMapped 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|58671897|gb|CK060583.1|CK060583EST: GTCTCACGCTATCAGTTAATG GAACATCTGTCAAAAGATGATGCAAGGCAACAGTTTCTCAGAATCTTAAGG
genomic: GTCTCACGCTATCAGTTAATGgtatttacct ... ttgcattcagGAACATCTGTCAAAAGATGATGCAAGGCAACAGTTTCTCAGAATCTTAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGATATCTCTTTTAGAGAGATTTCTACCCAGACAAGTTGCAATTACAAGAGCAAAGCGAGACTGGGAGCTTGACATTGTCTCACGCTATCAGTTAATGgtatttacctatctgtacaactttatgataccacacaaactcgatctaattattttatgtctattcaatttgtaacatacttttcctattcaactccatg
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT