Sequence
atgc intronic sequence ATGC exonic sequenceTTGCTGCTGCGACTACGAGACGGTGGACGCCATCAACGAGGAGGTGCTGCACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAGgtgaggatggatccatggcctttttgcaatcgttagtgtgcgatattagtgattgcagaaaatgtatgttgtagttatgttttggagagctagaattgct...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g52340.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g52340.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G108115_T02 (Zea mays), 5'ss of exon 2
TTGCTGCTGCGACTACGAGACGGTGGACGCCATCAACGAGGAGGTGCTGCACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAGgtgagga----tggatc-catggcctttttgcaatcgt--tagtgtgcgatattagtg-attgcagaaaatgtatgttgtagttatgttttggagagctagaattgct
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CTGCTGCTGCGACTATGAGACGGTGGACGCCATCAACGAGGAGGTCCTGCATCCAATCCTACAGGAACTCGTTAAGTTGCCCTTCTTCAGGTACTTCAAGgtgagcagttttggattgtgttcttttttccccaatgtcgtggactgttattttggcatattagttgaaatgtatgctctgatattccaatgaggcgata--------
upper sequence: LOC_Os03g52340.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G521844_T01 (Zea mays), 5'ss of exon 2
TTGCTGCTGCGACTACGAGACGGTGGACGCCATCAACGAGGAGGTGCTGCACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAGgtgaggatggatccatggcctttttgcaatcgt--tagtgtgcgatattagtg-attgcagaaaatgtatgttgtagttatgttttggagagctagaattgct
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TTGCTGCTGCGACTATGAGACGGTGGACGCCATCAACGAGGAGGTCCTGCATCCAATCCTACAGGAACTCGTTAAGTTGCCCTTCTTTAGGTACTTCAAGgtgagcacgtccggattgtttgtttttcaacgccgtggactgtgattttggcacattagttgaaatgtatgttgtggtattccaatgaggcgatagagtc---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|29656394|gb|CB652669.1|CB652669EST: ACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAG GTTAAATTGTGGTGTGACTGCCCTTTCTGGCCTGATGATGGAATGTGTCGG
genomic: ACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAGgtgaggatgg ... tcttgtttagGTTAAATTGTGGTGTGACTGCCCTTTCTGGCCTGATGATGGAATGTGTCGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGCTGCTGCGACTACGAGACGGTGGACGCCATCAACGAGGAGGTGCTGCACCCGATCCTGCAGGAGCTCGTCACTTTGCCCTTCTTCAGGTACTTCAAGgtgaggatggatccatggcctttttgcaatcgttagtgtgcgatattagtgattgcagaaaatgtatgttgtagttatgttttggagagctagaattgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT