Sequence
atgc intronic sequence ATGC exonic sequenceATGTCCCTATCAGTGCTAGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACACgtaagtggctcctggtcattccttcataatcttgtgttatgtagatagagtacttgtttttcaacaggggaacaaactagactggtaggttaaattattc...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g34620.8 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g34620.5 (Oryza sativa), 5'ss of exon 5
lower sequence: AC208327.4_FGT002 (Zea mays), 5'ss of exon 6
ATGTCCCTATCAGTGCTAGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACACgtaagtggctcctggtcattccttcataatcttgtgttatgtagatagagtacttgtttttcaacaggggaacaaactagactggtaggttaaattattc
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GCGTCCCTACCTGTGGTAGAGACATTCTTGGGGATCTCAAGCTCAAAGAGAGTGTTAAAGCCCACACgtaagtggctttgtagacctcctggatgatgtattttta-atttttag----------------------------------------------------
upper sequence: LOC_Os01g34620.5 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G880300_T02 (Zea mays), 5'ss of exon 5
ATGTCCCTATCAGTGCTAGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACACgtaagtggctcctggtcattccttcataatcttgtgttatgtagatagag------tacttgtttttcaacaggggaacaaactagactggtaggttaaattattc
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GCGTCCCTGTCTGTGGTAGAGACATTCTTGGGGATCTTAAGCTCAAAGAGTGTGTTAAAGCCCACACgtaagtgtctttgtatacctcctggatgatgtatttttaaacagtaagtggcaacacacttgtgtctcagaattgaaaatggtcca--tggtaaggtagatt----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|58675402|gb|CK064089.1|CK064089EST: AGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACAC CAACTGGCCTACATTTCCACAAATATTTATCAAAGGAGAGTTTGTTGGGGG
genomic: AGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACACgtaagtggct ... gcttgtgcagCAACTGGCCTACATTTCCACAAATATTTATCAAAGGAGAGTTTGTTGGGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGTCCCTATCAGTGCTAGGGATATTTTGGGAGACCTCAAGCTCAAAGAGAGTGTCAAAGCCCACACgtaagtggctcctggtcattccttcataatcttgtgttatgtagatagagtacttgtttttcaacaggggaacaaactagactggtaggttaaattattc
- - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - AAGAGA