Sequence
atgc intronic sequence ATGC exonic sequenceCACGCTGCTCTGCAAGAACTGCAGAAGTGTGAAAACGGTGCCGTGTAGGCCTGGCCTTGGTGGGGCTATTGTCCCACGATCGTGCGACCATGTTCCTCAGgtctaactccggctaaacataattgggttattgtcttgtttgtgttttaattctgatgtatatgagtgagttttctttaccatttttcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g55410.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g55410.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G075978_T01 (Zea mays), 5'ss of exon 4
CACGCTGCTCTGCAAGAACTGCAGAAGTGTGAAAACGGTGCCGTGTAGGCCTGGCCTTGGTGGGGCTATTGTCCCACGATCGTGCGACCATGTTCCTCAGgtctaactc-cggctaaacataattgggttattgtcttgtttg---tgttttaattctgatgt------------atatgagtgagttttctttaccatttttcag
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AACTCTTATCTGCAAGAATTGCCGGAGTGTGAGGACAGTGCCTTGCAGACCAGGCCTCGGCGGGGCTATTGTTCCACGTTCGTGTGACCATGTTCCTCAGgtatattcctcagcaatctattcaactgtcagcagcatacttgactcgccctagccccccccccccccccccccaaaaaaaaagaataattttaattatt------
upper sequence: LOC_Os02g55410.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G450055_T01 (Zea mays), 5'ss of exon 4
CACGCTGCTCTGCAAGAACTGCAGAAGTGTGAAAACGGTGCCGTGTAGGCCTGGCCTTGGTGGGGCTATTGTCCCACGATCGTGCGACCATGTTCCTCAGgtctaactccggctaaacataattgggttattgtcttgtttgtgttttaattctgatgtatatgagtgagttttctttaccatttttcag-----------------
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AACTCTTATATGCAAGAATTGCCGGAGTGTGAGGACAGTGCCTTGCAGGCCAGGCCTCGGCGGGGCTATCGTTCCACGTTCGTGTGACCATGTTCCTCAGgtatattcctcagcaatc-----tgctcaactgtcagcaacatactcgaaccc--acccaaaagaacaattttaattattcattcacctgacctgaaacccaagctaMapped 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|58671106|gb|CK059792.1|CK059792EST: CATGTTCCTCAG CCTGGAGAAGAGCCTTGCCCCTTGGACCCCTGGATTGCAGTTCCAGATAAG
genomic: CATGTTCCTCAGgtctaactcc ... catttttcagCCTGGAGAAGAGCCTTGCCCCTTGGACCCCTGGATTGCAGTTCCAGATAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACGCTGCTCTGCAAGAACTGCAGAAGTGTGAAAACGGTGCCGTGTAGGCCTGGCCTTGGTGGGGCTATTGTCCCACGATCGTGCGACCATGTTCCTCAGgtctaactccggctaaacataattgggttattgtcttgtttgtgttttaattctgatgtatatgagtgagttttctttaccatttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG