Sequence
atgc intronic sequence ATGC exonic sequenceAAGCTTCGGATGGTGGAGGATAGACTTATGCAGCAAAAAGCGCAATTGTTACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAGgtaatagtttcaatcacttaagcgagacccttttttttcctttcagtaatggaaaccatagatcagcattattctttaagtaatcattttactgtaccctcaatgaaatttcatctgctacatgccag
Basic information
species | Oryza sativa |
transcript | LOC_Os11g42420.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G348675_T02 (Zea mays), 5'ss of exon 27
---AAGCTTCGGATGGTGGAGGATAGACTTATGCAGCAAAAAGCGCAATTGTTACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAGgtaatagtttcaatca-------cttaagcg-agacccttttt-------tttccttt--cagtaatggaaaccatagatcagcattattctttaagtaatcattttactgtaccctcaatgaaatttcatctgctacatgccag
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GGAAAGCTTCGTGTGGTGGAAGAGAAACTTATGCAGCAAAATGCTCAACTTTTACTGGACGAAGCTGCTTCCTGGTCACTT---TGGCACATATATGGCAAAGgtaatagttccaattattggatacttagaaacagatcattcttcatatgattttcattagcagtatcgtaaactacaaatgag---tacttctggagtaactaatttattgtattttcttgactatttgatctgcttcatggcag
upper sequence: LOC_Os11g42420.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G348675_T02 (Zea mays), 5'ss of exon 4
AAGCTTCGGATGGTGGAGGATAGACTTATGCAGCAAAAAGCGCAATTGTTACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAGgtaatagtttcaatca-------cttaagcg-agacccttttt-------tttccttt--cagtaatggaaaccatagatcagcattattctttaagtaatcattttactgtaccctcaatgaaatttcatctgctacatgccag
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AAGCTTCGTGTGGTGGAAGAGAAACTTATGCAGCAAAATGCTCAACTTTTACTGGACGAAGCTGCTTCCTGGTCACTTCTTTGGCACATATATGGCAAAGgtaatagttccaattattggatacttagaaacagatcattcttcatatgattttcattagcagtatcgtaaactacaaatgag---tacttctggagtaactaatttattgtattttcttgactatttgatctgcttcatggcagMapped 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|29622702|gb|CB627713.1|CB627713EST: ACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAG GAAATGACGAGCTTCCTGGAGAGCTATTTGTG
genomic: ACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAGgtaatagttt ... tacatgccagGAAATGAGGAGCTTCCTGGAGAGCTATTTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGCTTCGGATGGTGGAGGATAGACTTATGCAGCAAAAAGCGCAATTGTTACTGGATGAGGCTGCTTCTTGGTCACTTCTTTGGTACCTCTATGGGAAAGgtaatagtttcaatcacttaagcgagacccttttttttcctttcagtaatggaaaccatagatcagcattattctttaagtaatcattttactgtaccctcaatgaaatttcatctgctacatgccag
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