Sequence
atgc intronic sequence ATGC exonic sequenceGTTCCTTGCCGAACAGCCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgagttatatctgtcaaagtatgagtaggatagtggagagttgctatccatgggcctttatagagttggactttacgatttctggatttgtttttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g37410.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g37410.1 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G131756_T01 (Zea mays), 5'ss of exon 14
GTTCCTTGCCGAACAGCCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgagttatatctgtcaaagtatgagtaggatagtggagagttgctatccatgggcctttatagagttggactttacgatttctggatttgtttttgcag
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GTTCCTTGTCGAACAGCTATGAGGGGTAGTTTCCCACTTAATGGCACTTACTTTCAAGTCAATGAGgtaaacagagtgacatttaatgtcttactcctagtactgc------tcctaagcctcctgtgtcaatggatacactttttgtgacgtgtgg--ctgtccatacag
upper sequence: LOC_Os05g37410.1 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G141792_T01 (Zea mays), 5'ss of exon 1
------------------------GTTCCTTGCCGAACAGCCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgagttatatctgtcaaagtatgagtaggatagtggagagttgctatccatgggcctttatagagttggactttacgatttctggatttgtttttgcag
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GATAAATTACTGGGACATGAATAGGTTCCTTGTCGAACAGCTATGAGGGGTAGTTTCCCACTTAATGGCACTTACTTTCAAGTCAATGAGgtaaacagagtgacatttaatgtcttactcctagtactgc------tcctaagcctcctgtgtcaatggatacactttttgtgacgtgtgg--ctgtccatacag
upper sequence: LOC_Os05g37410.1 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G020977_T01 (Zea mays), 5'ss of exon 1
-GTTCCTTGCCGAACAGCCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgagttatatctgtcaaagtatgagtaggatagtggagagttgctatccatgggcctttatagagttggactttacgatttctggatttgtttttgcag
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GGTTCCTTGTCGAACAGCTATGGGGGGTAGTTTCCCACTTAATGGCACCTACTTTCAAGTCAATGAGgtaaacatagtgatgtctaatgtcttactcctagtactgc------tcctaagcctcttgtctcaatggacacactttttgtgactct---atctatccatacagMapped 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|58677144|gb|CK065831.1|CK065831EST: CCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAG GTTTTTGCTGATCACAGTTCTAGCCACAATCCCATAAATATCCCAAGGGAG
genomic: CCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgag ... gtttttgcagGTTTTTGCTGATCACAGTTCTAGCCACAATCCCATAAATATCCCAAGGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCCTTGCCGAACAGCCATGAGAGGTAGTTTTCCACTTAATGGCACTTACTTTCAAGTTAATGAGgtatgctgagttatatctgtcaaagtatgagtaggatagtggagagttgctatccatgggcctttatagagttggactttacgatttctggatttgtttttgcag
- - - - - - - - - - GAGAGG