Sequence
atgc intronic sequence ATGC exonic sequenceTGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtgaagtactacatacatacagcaagctgtaatttgtttttgcaattgtgtattggaaagtgtgatactgagagtagtgtgtgtatttggcggtgtcttcgctttcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g43790.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g43790.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G120175_T04 (Zea mays), 5'ss of exon 3
TGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtgaagtactacatacatacagcaagctgtaatttgtttttgcaattgtgtattggaaagtgtgatactgagagtagtgtgtgtatttggcggtgtcttcgct-ttcag
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TGATTGTAGGTGAGATTGCCAATTTCGTGGCATATGCTTTCGCCCCCGCTGTTCTGGTTACTCCCCTTGGAGCACTCAGCATAATTGTTAGgttagctagctcaaattt----ctccttgcattctg-----acagttctattt-----atctttttagtcaagctataatttgacgttgagggtgtcttcacccttcag
upper sequence: LOC_Os05g43790.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G120175_T03 (Zea mays), 5'ss of exon 3
TGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtgaagtactacatacataca---gcaagctgtaatttgtttttgcaattgtgtattgg--aaagtgtgatactgagagtagtgtgtgtatttggcggtgtcttcgctttcag
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TGATTGTAGGTGAGATTGCCAATTTCGTGGCATATGCTTTCGCCCCCGCTGTTCTGGTTACTCCCCTTGGAGCACTCAGCATAATTGTTAGgttagctagctcaaatttctccttgcattctgacagttctatttatctttttagtcaagctataatttgacgttgagggtgtcttcacccttcagtgcag-------------
upper sequence: LOC_Os05g43790.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv06s0009g03650.t01 (Vitis vinifera), 5'ss of exon 3
TGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtga--agtactacatacatacagcaagctgtaatttgtttttgcaattgtgt-attggaaagt--gtgatactgagagtagtgtg-tgtatttggcggtgtcttcgctttcag
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TGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAGgtaatcagtagtgcattca---atttctttatgagttaacactcgaatggccttgttggttggtttatgatgttttgaatggtttgctgcag----------------------Mapped 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|33662767|gb|CF293734.1|CF293734EST: GCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAG TGCAGTGCTGGCACATTTTATCCTGAATGAGAGGTTACACGCGCTTGGTGT
genomic: GCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtgaagtact ... tcgctttcagTGCAGTGCTGGCACATTTTATCCTGAATGAGAGGTTACACGCGCTTGGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAGgtgaagtactacatacatacagcaagctgtaatttgtttttgcaattgtgtattggaaagtgtgatactgagagtagtgtgtgtatttggcggtgtcttcgctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA