Sequence
atgc intronic sequence ATGC exonic sequenceGGAGAAAAAGGAGACCGAATATATGCGGTTGCAGAGACATAAGATGGGGGTTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctgatctcaattccatacacaggaccttagcaaatttcttttggagcacaagaacactagatgtgctaagatttctttgtggccttctatttac...
Basic information
species | Oryza sativa |
transcript | LOC_Os05g43570.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G375904_T01 (Zea mays), 5'ss of exon 2
GGAGAAAAAGGAGACCGAATATATGCGGTTGCAGAGACATAAGATGGGGGTTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctgatctcaattccatacacaggaccttagcaaatttcttttggagcacaagaacactagatgtgctaagatttct----ttgtggccttctatttac----
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GGAGAAAAAAGAGACTGAATATATGCGCTTGCAGAGACACAAGATGGGAGTTGAAGATTTTGAACTTTTGACTATTATTGGGAGAGGTGCATTCGGAGAGgtacagctcttttcagtttc---catt---ctttaacag--tttgtgcaaaccagtccaatgatatacatgacattatttctgtttcttttgaattctatctatccca
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 5'ss of exon 3
GGAGAAAAAGGAGACCGAATATATGCGGTTGCAGAGACATAAGATGGGGGTTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctgatctcaattccatacacaggacctta-gcaaatttcttttggagcacaag--aacactagatgtgctaagatttctttgtggccttctatttac
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TGAGAGAAAGGAGACAGAGTATATGCGTATCCAAAGACATAAGATGGGTGTTGATGACTTTGAACTTTTGACCATTATAGGAAGAGGTGCCTTTGGAGAGgtttttatctacttaccttgtactattttatgttatgcaccttttcttaacattctcagttgagatgacatttgtctagtctaattttggggttgttgtg---
upper sequence: LOC_Os05g43570.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 5'ss of exon 2
GGAGAAAAAGGAGACCGAATATATGCGGTTGCAGAGACATAAGATGGGGGTTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctgatctcaattccatacacaggaccttagcaaatttcttttggagcacaagaacactagatgtgctaagatttctttgtggccttctatttac-----
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GGAGAGGAAAGAAACCGAGTATATGCGCTTGCAGCGCCACAAAATGGGAGTAGAAGATTTTGAGCTGTTAACTATTATAGGTCGTGGTGCATTTGGCGAGgtatcctgtccctacactactttttta-----ttgacatgccccttggcgctgtcaatagtccgagtcctgaaagtgttgcgtcattgtttcttctgttccagtaMapped 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|25799292|gb|CA755253.1|CA755253EST: TTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAG GTGCGTCTTTGTAGAGAGAAGGCGTCTAAGAATGTATATGCAATGAAAAAG
genomic: TTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctga ... aattatgcagGTGCGTCTTTGTAGAGAGAAGGCGTCTAAGAATGTATATGCAATGAAAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGAAAAAGGAGACCGAATATATGCGGTTGCAGAGACATAAGATGGGGGTTGAAGATTTTGAACTTTTGACAATTATTGGAAGAGGTGCATTTGGCGAGgtacttctgatctcaattccatacacaggaccttagcaaatttcttttggagcacaagaacactagatgtgctaagatttctttgtggccttctatttac
- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG