Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaatttctgtctattctcatgcttcaacccttttttggtcgtcttgattcctaacaatatctcatatcttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g03720.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 6
TGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaatt--tctgtcta---ttctcatgcttcaac------ccttttttggtcgtcttgattcctaacaatatctcatatcttgcag--------------------------------------------------------------------
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TGTTGGCATAACAAATACTGTTGGAAGCACGCTGTCTAGAAAAACACACTGTGGGGTTCATATCAATGCTGGTTGTGAGATTGGTGTTGCCAGTACAAAGgttggttggtctatataagtttttccctttgcaacgtgctccctttttttgtagctatccattgtcaccataactgaattctcatcataactgaaagaaggtacttagttttttatcctgaaatcctaacaacacctgacaatccaatcttgcag
upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA09G38460.1 (Glycine max), 5'ss of exon 7
TGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaat-ttctgtctat-----tctcatgcttcaacccttttttggtcgtcttgattcct-----aacaatatctca-tatcttgcag---------------
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TGTTGGGATAACAAACACTGTTGGTAGTGCAATAGCAAGGAATACACATTGTGGTGTTCATATAAATGCTGGTGCTGAGATTGGTGTGGCAAGTACCAAGgtaaatgttgcatttaaggatgttgttttcttcatttcattttatattgtcttattacttgtttaaccaatgttttactctcatgcatttataactactgtag
upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA18G47860.1 (Glycine max), 5'ss of exon 8
-TGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaat-ttctgtctat-----tctcatgcttcaacccttttttggtcgtcttgattcct-----aacaatatctcatatcttgcag----------------
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GTGTTGGGATAACAAACACTGTTGGTAGTGCAATAGCAAGGAATACACATTGTGGTGTTCATATAAATGCTGGGGCTGAGATTGGTGTGGCAAGTACCAAggtaaatgttgcatttaaggatgttattttcttcatttcattttatattgtcttattatttgtttaaccaatggtttac-tcgcacacatttataactactgta
upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv13s0064g00050.t01 (Vitis vinifera), 5'ss of exon 7
TGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaatttctgtctattctcatgcttcaacccttttttggtcgtct--tg-attcctaacaatatctcatatcttgcag----------------------------
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TGTTGGTATAACGAATACTGTTGGTAGTGCTATAGCAAGGAATACACACTGTGGTGTTCACATAAATGCTGGCTGTGAAATAGGTGTAGCAAGTACCAAGgtaaagatattcctttttttcttttgttatccttttctttttttctgttgtattttttttaatgtcttctattttgagttttatcttgttattgtttttataaacagMapped 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|8857882|gb|AU095200.1|AU095200EST: GTGGAGTTCATATCAATGCTGGNTGTGAAATAGGTGTTGCTAGTACCAAG GCATATACAAGTCCAATAGTAGTCATGGTGATGGTGGCCCTTGGCTGTTGG
genomic: GTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaatttct ... tatcttgcagGCATATACAAGTCAAATAGTAGTCATGGTGATGGTGGCC-TTGGCTGTTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGGCATAACAAATACCGTAGGAAGCACACTATCAAGAAGAACACATTGTGGAGTTCATATCAATGCTGGTTGTGAGATAGGTGTTGCTAGTACCAAGgttaatttctgtctattctcatgcttcaacccttttttggtcgtcttgattcctaacaatatctcatatcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG