Sequence
atgc intronic sequence ATGC exonic sequenceAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgcttttgttatatcctattattgttactacaattattaaatattgcttctgattgaaaacatgttctggggaagcaggtgcttaactaatgatatatttgtcacccacag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g06200.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G029735_T01 (Zea mays), 5'ss of exon 5
AGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgcttttgttatatc---ctattattgttactacaa----ttattaaatattgcttctgattgaaaac----atgttctgggg--aagcaggtgcttaactaatg----atatatttgtcacccacag-------------
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AGGAGTTGACGACTCTCGACCCGGAGAAGTTAGTGATGATATGTCCATTTTACAGgtaccattgttcacttctctctgactaatatagttcttctgaattctcatgacacaatttatcgaattgggaatgcagatgcttcatgcttaagtaatggtttttctcttggaataaatatttgttctttatatttgttatcaacag
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G829408_T01 (Zea mays), 5'ss of exon 8
AGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgcttttgttatatc---ctattattgttactacaa----ttattaaatattgcttctgattgaaaac----atgttctgggg--aagcaggtgcttaactaatg----atatatttgtcacccacag-------------
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AGGAGTTGACGACTCTCGACCCGAAGAAGTTAGTGATGATATGTCCATTTTACAGgtaccactattcacttctctctgactaatatagttcttctgaattctcatgacacaatttatcgaattgggaatgcagatgcttcatgcttaagtaatggtttttctcttggaataaatatttgttctttatatttgttatcaatag
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G052515_T01 (Zea mays), 5'ss of exon 6
AGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgcttttgttatatcctattatt---gttactacaatt---attaaatattgcttctgattgaaaac----atgttctgggg--aagcaggtgcttaactaatg----atatatttgtcacccacag-------------
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AGGAGTTGATGACTCTCGACCCGGAGAAGTTAGTGATGATATGTCAATTTTACAGgtaccactgttcacttctctctgactaatttagttctttgaattctcatgacacaatttatcgaattgggaatgcagatgcttcatgcttaagtaatggtttttctcttggaataaatatttgttctttatatttgttatcaacagMapped 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|58679104|gb|CK067791.1|CK067791EST: TTGATGACTCTCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG GCTGATATTGAAGCCCTCTCGCTGCAGGAGCACAGCGTAGATCAACAAATA
genomic: TTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgct ... tcacccacagGCTGATATTGAAGCCCTCTCACTGCAGGAGCACAGCGTAGATCAACAAATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAGgtatcatgcttttgttatatcctattattgttactacaattattaaatattgcttctgattgaaaacatgttctggggaagcaggtgcttaactaatgatatatttgtcacccacag
- - - - - - - - - - AGGAGA
- - - - - - - - - - - GGAGAA
- - - - - - - - - - - - AGAAGT