Sequence
atgc intronic sequence ATGC exonic sequenceGGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtctttcttatcaaattgcccttcatgttatcccccattacttaatgaagttttgtacctcatcttactattgaattgatgacagattcataagat...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g25980.2 |
intron # | 20 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g25980.2 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G479163_T01 (Zea mays), 5'ss of exon 2
GGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtctttcttatcaaattgcccttcatgttatcccccatta-cttaatgaagttttgtacctcatct-tactattgaattgatgacagattcataagat-
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GGGAATGATGTAAGGATGATACAACAGGCTGACATTGGTGTAGGAATTAGTGGTAGGGAAGGTCTTCAAGCTGCAAGGGCTGCTGACTATAGCATTGGCAgtgagt---acttaacatcttatcttttttgtctgctaccacaatccttatagcgctacatcctttacttataagacctgtgggttatcatgtcttctgtata
upper sequence: LOC_Os11g25980.2 (Oryza sativa), 5'ss of exon 20
lower sequence: GLYMA12G33340.1 (Glycine max), 5'ss of exon 20
GGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtctttcttatcaaattgcccttcatgttatcccccattacttaatgaagttttgtacctcatcttactattgaattgatgacagattcataagat-----
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GGGAATGATGTAAGGATGATACAGCAAGCTGATATTGGTGTGGGCATCAGTGGCAGGGAAGGATTACAGGCAGCAAGAGCAGCTGATTATAGTATTGGAAgtaagccttttt-----atgccctttgcaggtgcaatcatgatgtgtatgcgagttcttttacactgttccctaagtaccttctgtttctcccatttgaatttgt
upper sequence: LOC_Os11g25980.2 (Oryza sativa), 5'ss of exon 20
lower sequence: GLYMA13G37090.1 (Glycine max), 5'ss of exon 20
GGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtctttcttatcaaattgcccttcatgttatcccccattacttaatgaagttttgtacctcatcttac---tattgaattgatgacagattcataagat-----
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GGGAATGATGTAAGGATGATACAACAAGCTGATATTGGTGTGGGCATCAGCGGCAGGGAAGGATTGCAGGCAGCAAGAGCAGCTGATTATAGTATTGGAAgtaagccttttc------att-ttttttttgctcagcaaaaatagataattatattatatgcagagtaccaggggtactgaaaatac-atatgttgaagggatacaca
upper sequence: LOC_Os11g25980.2 (Oryza sativa), 5'ss of exon 20
lower sequence: AT5G44240.2 (Arabidopsis thaliana), 5'ss of exon 19
GGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaag---tctttct-tatcaaattgcccttcatgttatcccccattacttaatgaagttttgtacctcatcttactattgaattgatgacagattcataagat
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GGGAATGATGTAAGAATGATACAGCAAGCTGATATTGGGGTCGGCATCAGCGGAAGAGAAGGGCTGCAGGCAGCAAGAGCTGCAGACTATAGCATTGGAAgtaaggaatatatgtacataatatgtatcttcaagctaataccaaggaaacaatttctgattggttcttgctggactactct-ttgattgcag-----------Mapped 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|163929268|gb|EG711029.1|EG711029EST: TGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCA AGTTCAGATTTTTGAAAAGGCTGATTCTTGTCCATGGGCGATACTCATACA
genomic: TGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtcttt ... gtcttggcagAGTTCAGATTTTTGAAAAGGCTGATTCTTGTCCATGGGCGATACTCATACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAATGATGTCAGGATGATACAACAGGCTGATATTGGTGTAGGAATTAGTGGCAGAGAAGGTCTTCAAGCAGCAAGGGCTGCTGACTATAGCGTTGGCAgtaagtctttcttatcaaattgcccttcatgttatcccccattacttaatgaagttttgtacctcatcttactattgaattgatgacagattcataagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT