Sequence
atgc intronic sequence ATGC exonic sequenceCTGAATGGTATCAGCAATGCTACATTTGTTCAGGGAGACCTTAATAAAATCAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttggcacatatctgttagtacatattttttgtagcaattcgagttatccctgatgagtagaatctacaatgctttcactgctttgctagatcctaatagacatcattaaatttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g09750.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g09750.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G115198_T02 (Zea mays), 5'ss of exon 7
CTGAATGGTATCAGCAATGCTACATTTGTTCAGGGAGACCTTAATAAAATCAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttggcacatatctgttagtacatattttttgtagcaattcgagttatccctgatgagtagaatctacaatgctttc-actgctttgctagatcctaatagacatcattaaatttgcag
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TTGAACGGTATCAACAATGCAACATTTGTTCAAGGGGACCTCAATAAAATCAATGAATCATTCGGGAAGGAATTTCCAAAGCCTGACATAATCATCTCAGgtt-gtattggtttttat--actgatac-tattctttg--gca-ttcaaatt-ttagttatg--------ccatgatgttccctggaaatttgtttgacaacaacagttctttcta---------
upper sequence: LOC_Os01g09750.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G02550.1 (Glycine max), 5'ss of exon 7
-------------------------------------------------------------------CTGAATGGTATCAGCAA-TGCTACATTTGTTCAGGGAGACCTTAATAAAATCAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttggcacatatctgttagtacatattttttgtagcaattcgagttatccctgatgagtagaatctacaatgctttcactgctttgctagatcctaatagacatcattaaatttgcag
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TGATAGACATGTTTATGGCTATGAAGTAGTTCCTCAAGCCATCACAGATGCTCATCTTAATGCCAAGATAAATGGAATAAAAAAATGCAACATTTgtccagggagatctcaataaaattgatgagaattttgggaagaattttcctaaacctgacattgtcatttcaggttt-cgttgctctaagtttccttattc------------------------------------------------------------------------------------------------
upper sequence: LOC_Os01g09750.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G42890.1 (Glycine max), 5'ss of exon 8
CTGAATGGTATCAGCAATGCTACATTTGTTCAGGGAGACCTTAATAAAATCAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttggcacatatctgttagtacatattttttgtagcaattcgagttatccctgatgagtagaatctacaatgctttcactgctttgctagatcctaatagacatcattaaatttgcag
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ATAAATGGAATACAAAATGCAACATTTGTCCAGGGAGATCTCAATAAAATTGATGAGAATTTTGGGAAGAATTTTCCTAAACCTGACATTGTCATTTCAGgttt-cattgctctaagtttccttattcctacttattcttatg-ttatatgtatttctcttaattaatttggcttctgctgaaagctatttacttgaatata----------------------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|27548300|gb|CA766414.2|CA766414EST: CAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAG ATCCTAATCGGCCAGGGATGCATATGAAGCTAATCAAGTGGCTACTAGAAG
genomic: CAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttg ... aaatttgcagATCCTAATCGGCCAGGGATGCATATGAAGCTAATCAAGTGGCTACTAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGAATGGTATCAGCAATGCTACATTTGTTCAGGGAGACCTTAATAAAATCAATGAAACATTTGGGAAGGAATTTCCGAAACCTGACATAATCATATCAGgtttgtcttggcacatatctgttagtacatattttttgtagcaattcgagttatccctgatgagtagaatctacaatgctttcactgctttgctagatcctaatagacatcattaaatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA