Sequence
atgc intronic sequence ATGC exonic sequenceCCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g48380.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g48380.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G065044_T02 (Zea mays), 5'ss of exon 6
CCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag----------
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CAACAGAAGTTAATGGAGTACCTGAGTCAGTAATGCCTTCTGTATATGTTGGCCAATATGTGCGCTTGTTTGAGCAAGGAGATACAGTTAGTATACTACCgtaagcttcttgatacttgttttcaaaaaagttataacatattctttatatgaatatgaatataaatagttatacctcaatctggttgcag
upper sequence: LOC_Os02g48380.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G480620_T01 (Zea mays), 5'ss of exon 7
CCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag----------------------------------
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CAACAGAAGTTAATGGAGTACCTGAGTCAGTAATGCCTTCTGTATATGTTGGCCAATATGTGCGCTTGTTTGAGCAAGGAGATACAGTTAGTCTACTACCgtaagctccttgatactt-gttttcaaaaaattataacacattttttatatggatatgaatatgaatagttatgcctcaatctcattgcaacctttctgatactgaatacaccag
upper sequence: LOC_Os02g48380.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G124396_T01 (Zea mays), 5'ss of exon 6
CCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag----------
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CAACAGAAGTTAATGGAGTACCTGAGTCAGTAATGCCTTCTGTATATGTTGGCCAATATGTGCGCTTGTTTGAGCAAGGAGATACAGTTAGTCTACTACCgtaagctccttgatacttgttttcaaaaaaattataacaca-tttttatatggatatgaatatgaatagttatgcctcaatctcattgcag
upper sequence: LOC_Os02g48380.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G856899_T01 (Zea mays), 5'ss of exon 5
CCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag----------
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CAACAGAAGTTAATGGAGTACCTGAGTCAGTAATGCCTTCTGTATATGTTGGCCAATATGTGCGCTTGTTTGAGCAAGGAGATACAGTTAGTCTACTACCgtaagctccttgatactt-gttttcaaaaaattataacaca-tttttatatggatatgaatatgaatagttatgcctcaatctcattgcagMapped 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|88226302|gb|CI226218.1|CI226218EST: GGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCC CCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTT
genomic: GGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctt ... gtgcttgcagCCTTTCTGATACTGAGTATACCAGCTATGCTTTGTCAGAAGCTGAAAGGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCAAAGGAGTCAATGGATTACCTGAGTCAGTAATGCCTTCCGTATATGTTGGTCAGTATGTACGCTTGTTTGAGCAAGGAGATACAGTTGCGGTGCTTCCgtaagttctttgacccttagttacttttagatgttaacgtaatttttatatgactacttatatctgacactgtgcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT