Sequence
atgc intronic sequence ATGC exonic sequenceTCGATTTCGCCAGCATGATGAACCCCGGGTCGCGCCAGATTTACCTCACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatgcgatgttgcaatgatgcttcttccttctttcatggcgggctcggtaggacgcgatctgattggcatttttgcattgctgttcttggcaacgcgccgcgctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g21160.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g21160.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G819035_T01 (Zea mays), 5'ss of exon 3
TCGATTTCGCCAGCATGATGAACCCCGGGTCGCGCCAGATTTACCTCACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatgcgatgttgcaatgatgcttcttccttctttcatggcgggctcggtaggacgcgatctgattggcatttttg--cattgctgttcttggcaacgcgccgcgctgcag
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CCGACTTCGCCAGCCTGATGAATCCCAGCTCGCGCCAGATTTATCTGACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTATTTCAGgtatgcatgcacacacggtaatg-tgatgctccaatcttt----gcg---tccgtagaaacccgtttggttgcgtgacttgaccctcgcgcttcttagcaatgcggtgtag-----
upper sequence: LOC_Os03g21160.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G086614_T01 (Zea mays), 5'ss of exon 2
TCGATTTCGCCAGCATGATGAACCCCGGGTCGCGCCAGATTTACCTCACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatgcg-----atgttgcaatgatgcttcttccttctttcatggcgggctcggtaggacgcgatctgattggcatttttgcattgctgttcttggcaacgcgccgcgctgcag
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CTGACTTCGCGAACATGATGAACCCGGGCTCGCGGCAGATTTACCTGACATTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatgctatgcatgcacacatgttaatg-tgattgatgctgcaatctttgcttcggtagaagaaccccgtttggttgg---ttgaccctcgcgcttcttggcaatgcggcgcag-----
upper sequence: LOC_Os03g21160.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G003424_T01 (Zea mays), 5'ss of exon 2
TCGATTTCGCCAGCATGATGAACCCCGGGTCGCGCCAGATTTACCTCACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatgcgatgttgcaatgatgcttcttccttctttcatggcgggctcggtaggacgcgatctgattggcatttttg--cattgctgttcttggcaacgcgccgcgctgcag
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CCGACTTCGCTAGCATGATGAACCCCGGCTCGCGCCAGATTTATCTGACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTATTTCAGgtatgcatgcacacacggtaatg-tgatgctccaatcttt-------gcttccgtagaaccccgtttggttggctgacttgaccatcgcgcttcttgttg--gcaatgcggtgcagMapped 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|163928946|gb|EG711958.1|EG711958EST: TTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAG CATCTACGGGCCGGTGCACGACGTGCGCATCCCGTACCAGCAGAAGCGCAT
genomic: TTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatg ... cgcgctgcagCATCTACGGGCCGGTGCACGACGTGCGCATCCCGTACCAGCAGAAGCGCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGATTTCGCCAGCATGATGAACCCCGGGTCGCGCCAGATTTACCTCACCTTCCCGGCCGACAGCACGTTCCGCGAGGAGGACGTCTCCAACTACTTCAGgtatataatgcgatgttgcaatgatgcttcttccttctttcatggcgggctcggtaggacgcgatctgattggcatttttgcattgctgttcttggcaacgcgccgcgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA