Sequence
atgc intronic sequence ATGC exonic sequencegtaggtatactcttttctcttgataacaaagaaactaaaagaagtttttttttctcgaccaaaagaagtttttataatacttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
Basic information
species | Oryza sativa |
transcript | LOC_Os03g08070.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G855347_T02 (Zea mays), 3'ss of exon 2
---gt-aggtatactcttttctcttgataacaaagaaactaaaagaagtttttttttctcgaccaaaagaagtttttataatacttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
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gttgtgaaacacaccctttgctgttgagagtaaag----cgaagggtg----------------aaaagggtgtttaactatatatgtat---ccttgaacagGTTGAGGATGCCCAAGCACGTGAAGCTCCTGTTCAAAGGCTCGCAGATTCCATCGCAGGACCATTTGTGTATACTGTTATGACGTTGGCTGCAACAACCT
upper sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA04G05900.1 (Glycine max), 3'ss of exon 6
gtaggtatactcttttctcttgataa--caaagaaactaaaagaagtttttttttctcgaccaaaagaagtttttataatact-tgtattgttcttgaa-----cagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
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-----ttgagcttgcactgctgataagtccattgacttgtgatacgtggaaatcaaacaattgt--gaagtttttggaatattacatatttattttgtgaaatttagGTTGAGGATGCTCAATCACGTGAAGCACCTGTACAAAGGCTTGCAGATTCAATAGCAGGGCCATTTGTATACAGTGTAATGACTTTGTCAGCAGCAACAT
upper sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA06G05890.1 (Glycine max), 3'ss of exon 8
gtaggtatactcttttctcttgataacaaagaaactaa-aagaagtttttttttctcgaccaaaagaagtttttataatact-tgtattgttcttgaa-----cagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
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------gagcttgcattgctgattagtccattgacttgtgatatgtggaaatcaaacaattgtatagagttttggaaatattacatctttatcttgtgaaatttagGTTGAGGATGCTCAATCACGTGAAGCACCTGTACAAAGGCTTGCAGATTCAATAGCAGGGCCATTTGTATACAGTGTAATGACTTTGTCAGCAGCAACAT
upper sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv04s0008g01960.t01 (Vitis vinifera), 3'ss of exon 8
gtaggtatactcttttctcttgataacaaagaaac-taaaagaagtttttttttctcgaccaaaagaagtttttataatac-ttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
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-tttaaagaatctatatacttgatggcttgttgatacatgaggagtttaaatgttttagtagtttctacggtttatgaaaccttttgctcataatcttcagGTTGAGGATGCTCAAGGCCGTGCAGCACCCATACAAAGGCTTGCAGATTCAATTGCTGGACCATTTGTCTATATTGTGATGACTTTATCAGCAGCAACTTMapped 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|29622946|gb|CB627957.1|CB627957EST: AAGCGACAACTACTGGACCATCATCAACAATTGCTAAGATTGTCCGAATG GTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCA
genomic: AAGCGACAACTACTGGACCATCATCAACAATTGCTAAGATTGTCCGAATGgtaggtatac ... tcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttttctcgaccaaaagaagtttttataatacttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
ttgttctt CT-rich tract
aaaagaagtttttata TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtatactcttttctcttgataacaaagaaactaaaagaagtttttttttctcgaccaaaagaagtttttataatacttgtattgttcttgaacagGTTGAGGATGCACAAGCACGTGAAGCTCCCGTTCAAAGGCTTGCAGATTCAATTGCAGGGCCATTTGTTTATACTGTTATGACATTGTCTGCAGCAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG