Sequence
atgc intronic sequence ATGC exonic sequenceGTCCGGGACAATATATTGTTTGGGTCTCCCTTCCAACCTCCACGCTACGAGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCAgtaagttctaactatttcagtcttcagagatcgttctggaaatttttgacactcgagctttcatttgatagataacttgctggggagtgtgttttttttt...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g52900.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 18
GTCCGGGACAATATATTGTTTGGGTCTCCCTTCCAACCTCCACGCTACGAGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCAgtaagttctaactat-----ttcagtcttcagagatcgttctggaaatttttgaca-ctcgagctttcatttgatagataa----cttgctggggagtgtgttttttttt
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GTACGTGACAATATTTTGTTTGGGTCTCCCTTTCAACCCCCACGATACGAGAAAGCAATTGATGCCACTTCATTGCGGCATGACCTTGACCTACTCCCAgtaagttttaaatacaagtattccaacttcactgttcagg-tggaaattttggaaagctatggcacccatttgatgaagaaagagcttcctggagaacatg---------
upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 18
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 5'ss of exon 18
GTCCGGGACAATATATTGTTTGGGTCTCCCTTCCAACCTCCACGCTACGAGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCAgtaagttctaactatttcagtcttcagagatcgttctggaaatttttgacactcgagctttcatttgatagataacttgctggggagtgtgttttttttt-----------------------
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GTGCGGGGTAACATATTATTTGGATCTCCCTTTGAAGCAGCGAGATATGAGAAAGCAATAGATGTGACTGCATTGCAGCATGACCTTGACTTACTGCCTgtaagttt----gttctcaagagttgtatcatgttgcagttctcttgaatttgcaaattcctgtattactcatagtttgt--ggccgtatattttttggtcatcttacattcttatttgttagMapped 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|157650622|gb|EX450256.1|EX450256EST: AGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCA GGTGGTGACCTAACAGAGATTGGAGAAAGAGGAGTTAACATTAGTGGGGGA
genomic: AGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCAgtaagttcta ... ttgttgtcagGGTGGTGACCTAACAGAGATTGGAGAAAGAGGAGTTAACATTAGTGGGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCCGGGACAATATATTGTTTGGGTCTCCCTTCCAACCTCCACGCTACGAGAAAGCAATAGATGTCACTTCATTACGGCATGACCTTGACTTACTCCCAgtaagttctaactatttcagtcttcagagatcgttctggaaatttttgacactcgagctttcatttgatagataacttgctggggagtgtgttttttttt
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