Sequence
atgc intronic sequence ATGC exonic sequenceGGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAATgttagtatttatttgattgttaaactagattcatgtcatatgttgtacttctattgtttctagtataaaatgcatactcttttgtatgctattcacttacaatctgttgggaactaggtgtgaatatttcctgttaacttctaatgctaaaactgttttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g41120.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g41120.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G161019_T01 (Zea mays), 5'ss of exon 2
GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAATgttagtatttatttgattgttaaactagattcatgtcatatgttgtacttctatt---gtttctagtataaaatgcatactcttttgtatgctattcacttacaa-tctgttgggaactaggtgtgaatatttcctgttaacttctaatgctaaaactgttttgcag
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GGTCATATTTTTATTCGTCAACAGAGACTAAGTTAGTCGTGGACACATCAAGAGGGGAAAGGCTACGAGTAAATgttagtactttttt--ttatcagtttaactgtctgtagattatt-tacttctattcttgtttaaagagacagacacatacatcttcatgcggtagtgcctaacaagtgtcttttgtaatggtaactccaatttgcag------------------------------
upper sequence: LOC_Os05g41120.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G044457_T01 (Zea mays), 5'ss of exon 2
GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAATgttagtatttatttgattgt-taaactagattcatgtcatatgttgtacttctattgtttctagtata-------aaatgcatactcttttgtatgctattcacttacaatctgttgggaactaggtgtgaatatttcctgttaacttctaatgctaaaactgttttgcag
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GGTCATATTTTTATTCAGCAACAGAGACTAAGTTAGTTGTGGACACATCAAGAGGAGAAAGGCTACGAGTAAATgttagtacttttttaactaaataaactgtctgtaggttatttgttatacttctatcctttccgttttatagagagagacacatacattgtcgtgtagtagtgcctaacaaat------gacttctgtgatggtaactccaatttacag-----------------------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|58597057|gb|CK007585.1|CK007585EST: AGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAAT TTTGACGTAACTTTTCCGAGTGTTCCCTGCACCCTTCTCAGTGTTGATACC
genomic: AGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAATgttagtattt ... tgttttgcagTTTGACGTAACTTTTCCGAGTGTTCCCTGCACCCTTCTCAGTGTTGATACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCTACGAGTTAATgttagtatttatttgattgttaaactagattcatgtcatatgttgtacttctattgtttctagtataaaatgcatactcttttgtatgctattcacttacaatctgttgggaactaggtgtgaatatttcctgttaacttctaatgctaaaactgttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - AAGAGG