Sequence
atgc intronic sequence ATGC exonic sequenceGTCATGGAAAAGCTCGTAGACATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggcttcatgactgctatttactattaaaattatcatcatatctattgtttctatgcctcccttagcaatatgatctgctaacagttttccatga...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g65330.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G148773_T02 (Zea mays), 5'ss of exon 7
GTCATGGAAAAGCTCGTAGACATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggcttcatgactgctatttactattaaaattatcatcatat----ctattgtttctatgcctcccttagcaatatgatctgctaacagttttccatga
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GTCATGGGAAAGCTTGTGGACATTGTGCACTTCTTACATTTGGAGATCCATAATGCATTTGGGCTTTCAGgtaataacctttgtgat---tatcttatatgaaacttttgcacatattgagctgttggctagattatcatctttgattgcttttctgctgaaagcaatt-gtga
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G046846_T01 (Zea mays), 5'ss of exon 8
GTCATGGAAAAGCTCGTAGACATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggcttcatgactgctatttactattaaaattatcatcatat----ctattgtttc-tatgcctcccttagcaatatgatctgctaacagttttccatga-
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GTCATGGGAAAGCTTGTGGACATTGTGCACTTCTTACATTTGGAGATCCATAATGTATTTGGGCGTTCAGgtattaatctttgtta----tatcttatat-aaaactttgtacatattgagctattggctagtttatcatcttgattgcttttttttgttgaaagcaatt-gtgag
upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 7
GTCATGGAAAAGCTCGTAGACATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggcttcatgactgctatttactattaaaattatcatcatatctattgtttctatgcctcccttagcaatatgatctgctaacagttttccatga--
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GTAATGGAGAAGCTTGTAGACATTGTGCATTTCTTACATTTGGAGATACATGATGCCTTTGCTACTGCTGgtatgaattccaaacgttgataattttttttcccctgctcatagtaacc--tgaaggcctgcatcactgtccatcatctcttgatatgggagaaaaaggagaMapped 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|29680203|gb|CB676478.1|CB676478EST: CATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAG ACAATGAAGAATCACAAGAACCTACCAAACGACGTAATAGATTGGGTCCAG
genomic: CATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggct ... caatttatagACAATGAAGAATCACAAGAACCTACCAAACGACGTAATAGATTGGGTCCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCATGGAAAAGCTCGTAGACATTGTGCATTTCTTACATTTGGAGATCCATAATGCCTTTGGGCGCTCAGgtattaggcttcatgactgctatttactattaaaattatcatcatatctattgtttctatgcctcccttagcaatatgatctgctaacagttttccatga
- - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - GAGATC