Sequence
atgc intronic sequence ATGC exonic sequenceGGTTTTCTGAAGATATGCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcactgtaactcctgaacaaaaaatgggtcagtcagcattctaccctagattccaaacttgtagcaaacaatccctcaagatgtgcacccaatgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g18010.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g18010.1 (Oryza sativa), 5'ss of exon 19
lower sequence: GRMZM2G453879_T01 (Zea mays), 5'ss of exon 4
GGTTTTCTGAAGATATGCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcactgtaactcctgaacaaaaaatgggtcagtcagcattctaccctagattccaaacttgtagcaaacaatccctcaagatgtgcacccaatgt
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GGTTTTCTGAAGATATGTCAGTTGCCATCTGCATATAACTATGACAACTACTGGCCTGTTCAAAAGgtaa--agttaatcttcatgtccacatgctttacc--ttaacattatttgcagcattgtttttcttatacaaa-agttttttat--tgcacatctgtag-
upper sequence: LOC_Os04g18010.1 (Oryza sativa), 5'ss of exon 19
lower sequence: GLYMA09G28030.1 (Glycine max), 5'ss of exon 19
GGTTTTCTGAAGATATGCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcactgtaactcctgaacaaaaaatgggtcagtcagcattctaccctagattccaaacttgtagcaaacaatccctcaagatgtgcacccaatgt
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GGTGTTTTGAAGATATGTCAGTTGCCTTCTGGCTCAAACTATGACAGCTACTGGCCTGTACAAAAAgtg---agcttt--cttctgtacaaactacgaaatctagatttttttacctgatttggttggaccttttctaata-tttgttatcattcttag-------
upper sequence: LOC_Os04g18010.1 (Oryza sativa), 5'ss of exon 19
lower sequence: GLYMA16G32890.1 (Glycine max), 5'ss of exon 19
GGTTTTCTGAAGATATGCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcactgtaactcctgaacaaaaaatg--ggtcagtcagcattctaccctaga---ttccaaacttgtagcaaacaatccctcaagatgtgcacccaatgt
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GGTGTTTTGAAGATATGCCAGTTGCCTTCTGGCTCAAACTATGACAGCTACTGGCCTGTACAAAAAgtgagttttctttttctcaaactatgaaatcttgattttctacctgatttggttggaccttttctaatttgtgata--tcattcttag-----------------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|29669290|gb|CB665565.1|CB665565EST: GCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAG GTCCCTTTGCATGGCACCCCACATCAGGTCACGTATTATGCAGAGCAATCT
genomic: GCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcact ... atctttgcagGTCCCTTTGCATGGCACCCCACATCAGGTCACGTATTATGCAGAGCAATCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTTTTCTGAAGATATGCCAATTGCCCTCAGCATATAACTATGACAGCTACTGGCCTGTTCAAAAGgtacctcactgtaactcctgaacaaaaaatgggtcagtcagcattctaccctagattccaaacttgtagcaaacaatccctcaagatgtgcacccaatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat