Sequence
atgc intronic sequence ATGC exonic sequenceGTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaaattattagcatgcaaattcatttttttaatgatactagctccttgcttaaataatacaaaaatacataatctccactgaattttaactaattttgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g04100.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g04100.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G126812_T01 (Zea mays), 5'ss of exon 5
GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaaatta-ttagcatgcaaattcattt-ttttaatgatactagctccttgcttaaataatacaaaaatacataatctc-cactgaattttaactaattttgt
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GTGCAGAGAAATCTGGGAAGAATGCTGAAGGTGATTCTTGGTGGGAGAAGTGGAAAGAAGTACTGTACCAAGATGAATGGAGgtaaattagctaatttgtagattcagatattttaagtatacttgtcctgcccttgtgtaagacagaccttttttttgtgacgtagagttgtatacagact---
upper sequence: LOC_Os03g04100.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G110345_T01 (Zea mays), 5'ss of exon 5
GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaaatta-ttagcatgcaaattcattt-ttttaatgatactagctccttgcttaaataatacaaaaatacataatctccactg-aattttaactaattttgt
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GTGCGGAGAAATCTGGGAGGAATGCTGAAGGAGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTGTACCAAGACGAATGGAGgtaatttagctaatttgtagattcagatattttaagtatacctgtcctgctcttgtttaagacagaag-gtttattctccaatgcaagcttaactgaccgt--
upper sequence: LOC_Os03g04100.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv18s0001g00110.t01 (Vitis vinifera), 5'ss of exon 5
GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaa-------attatta------gcatgcaaattcatttttttaatgatactagctcc-ttgcttaaataatacaaaaatacataatctccactg-----aattttaactaattttgt-------------------------------
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GTGTGGAGAAATCTGGAAGGAATGCTGAAGGGGATTCATGGTGGGAAACATGGCAAGAAGTTCTTCATCAAGATGAATGGAGgtcttgtctttattattgtctactgcacttaaagataacttctgatttttgcaaacaccactgtatgcacaaattaaagttttctagtttagcatggtgacaatttgtagtaattgtggataccataattaccaaattttaaatttgtagMapped 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|66924094|gb|CX110942.1|CX110942EST: GATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAG CAATCTTGCAAGA
genomic: GATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaaattatt ... gtgcaaacagCAATCTTGCAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGCGGAGAAGTCTGGAAAGAATGGTGAAGGTGATTCTTGGTGGGAGAAATGGAAAGAAGTTCTTTACCAAGATGAATGGAGgtaaattattagcatgcaaattcatttttttaatgatactagctccttgcttaaataatacaaaaatacataatctccactgaattttaactaattttgt
- - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG