Sequence
atgc intronic sequence ATGC exonic sequenceGGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGACATACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttcattccag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g44000.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G018447_T01 (Zea mays), 5'ss of exon 3
GGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGACATACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttca-ttccag
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GGTAATTGAGGTCACTGGAGCGGCGGGCACCCTTTACGCCGGCGAGACCTACCAGTTGCAGGTTGACTTCCCTGAGCATTATCCTATGGAGGCACCTCAGgtctggttt-tctggacaa-agatcgcatatttagtcaattacgtcta-ctcatcctt---tttcccttcat---ttcatttgattgaat---gatacataaccattcacgtcttttgcttccag
upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G007381_T01 (Zea mays), 5'ss of exon 3
GGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGACATACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttcattccag
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GGTAATTGAGGTCACCGGAGCGGCGGGCACCCTTTACGCCGGCGAGGCTTACCAGTTGCAGGTTGACTTCCCTGAGCATTATCCTATGGAGGCACCTCAGgtctggttt-tctcgacaa-agattgc--------------acctttagtcgattgtt---tgtcttctcatttcttctgttccttccatttcatt------tgattggactcatcttttccagMapped 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|88237642|gb|CI237491.1|CI237491EST: ACCAGCTGCAGGTCGACTTGCCTGAGCATTATCCCATGGAGGCGCCTCAG GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGG
genomic: ACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttc ... ttcattccagGTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTAATCGAGGTCACCGGAGCGGCGGGCACGCTCTACGCCGGCGAGACATACCAGCTGCAGGTCGACTTCCCTGAGCATTATCCCATGGAGGCGCCTCAGgtgagctttcttttcacaacagattactttctcatatagaaacctttaattaatcctttcgtttcttctcatctgttccctgcattcgatttggttgcaaactaatttaactctttcattccag
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG