Sequence
atgc intronic sequence ATGC exonic sequenceGTGCAGCCGGCGGGGCTGGACGCCGACGAGCTCCTCACGCTGATGCACGGGTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgtgagttgatgattcctggatgattccttcaattccttctggggatcttacgggctaatgcttatgtatttttctcgtttggttttag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g50320.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G832989_T02 (Zea mays), 5'ss of exon 1
GTGCAGCCGGCGGGGCTGGACGCCGACGAGCTCCTCACGCTGATGCACGGGTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgtgagttgatg----------attcctggatgattcc----ttcaattccttctgg--ggatcttacgggc--taatgctta---tgtatttttctcgtttggttttag
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CCGGTGCAGGCGGGCCTGGACGCGGACGACCTCCTCACTCTCATGCACGGCTCGGATCCCGTCAAGGTCGAGCTTAACCGGCTCGAGAACGAAGTCAGGGgtgagctgattcgtggctgttactgctgcgtgggttcaaattttatttgattttcgcagcatcttaagggtcttattgcgcaatgtttggttcttttacgaggttttag
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G832989_T01 (Zea mays), 5'ss of exon 1
GTGCAGCCGGCGGGGCTGGACGCCGACGAGCTCCTCACGCTGATGCACGGGTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgtgagttgatg----------attcctggatgattcc----ttcaattccttctgg--ggatcttacgggctaatgcttatgtatttttctcgtttggttttag-
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CCGGTGCAGGCGGGCCTGGACGCGGACGACCTCCTCACTCTCATGCACGGCTCGGATCCCGTCAAGGTCGAGCTTAACCGGCTCGAGAACGAAGTCAGGGgtgagctgattcgtggctgttactgctgcgtgggttcaaattttatttgattttcgcagcatcttaagggtc--ttattgcgcaatgtttggttcttttacgagg
upper sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S136_188V6.1 (Physcomitrella patens), 5'ss of exon 1
GTGCAGCCGGCGGGGCTGGACGCCGACGAGCTCCTCACGCTGATGCACGGGTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgt--gagttgatgattcctggatgattc------cttcaattccttctggggatcttac--gggctaatgcttatgtatttttctcgtttggttttag--
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GTAGTGCGCGCTTGTCCTGATACAGAGGATCTTTTGAACCTGTTGCATGGGTCTGATCCAGTTAAGGTGGAGCTGAACCGCCTCGAGAACGAAGTCAGGGgtaagagttggtgtcgcgtcatcgcttcttggtccttctctgtccacgagctgctctgctgggagtgagactagcgatttgtccaagattcattcgacctMapped 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|29636308|gb|CB641317.1|CB641317EST: GTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGG ATAAGGATAGGGAGCTCGGAGATGCGCATGCGGAGATTAAGGCGCTAAGGC
genomic: GTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgtgagttgat ... ttggttttagATAAGGATAGGGAGCTCGGAGATGCGCATGCGGAGATTAAGGCGCTAAGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGCAGCCGGCGGGGCTGGACGCCGACGAGCTCCTCACGCTGATGCACGGGTCGGATCCCGTCAAGGTCGAGCTCAACCGCCTGGAGAACGAAGTGAGGGgtgagttgatgattcctggatgattccttcaattccttctggggatcttacgggctaatgcttatgtatttttctcgtttggttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA