Sequence
atgc intronic sequence ATGC exonic sequencegtaagttactttgtattgattgagatttatgttcatttgctgcagtttgaatatattttttaatctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g31874.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G144254_T03 (Zea mays), 3'ss of exon 5
gtaagttactttgtattgattgag-atttatgttcatttgctgcag---tttgaatatattttttaatctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
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gtaggttatattttattttgtaaacatccatgcatctaggatgctgattctttcagatttatttggtgctgactgccatgtgttatccccactccttcctgttccctgtctagGTCTAACATGATGAGGCTGACTATGAACAGCAGATACGAGTTTCATAGCTGGTTCACATACTCAATTGTTCTTCTGTTTCTGTGTACCGCTGGATTTTGG
upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G477146_T01 (Zea mays), 3'ss of exon 8
gtaagttactttgtattg-attgagatttatgttcatttgctgca-gtttgaatatattt-tttaat-ctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
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gtaggttatattttatttcatcaaaatccatgcatctgggatgcttattctttcagatttatttggtgctgactaccatgtgttgttccccactccctgtttc--ctgtccagGTCTAACATGCTGAGACTGACGATGAGCAGCAGATACGAGTTCCATAGCTGGTTCACATATTCGATCGTTCTCCTGTTTCTGTGTACTGCTGGATTTTGG
upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 8
gtaagttactttgtattgattgagatttatgttcatttgctgcagtttgaatatattttttaatctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
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gtaagcaaact-acattggtt----tttatg---aaatggtgcaggtaaaat----tgtgaaagct-----acttttattcctaatatgcagtttcttgtcttgctcagCTCCAACCTGCTGAGATTGGCAATGTCTAGTGGCTATCAGTTGCATAGCTGGTTCACATACTCCATGCTTCTTTGCTTTCTTAGTACAGCTGGATTTTGGMapped 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|58688305|gb|CK076992.1|CK076992EST: ATTGTATCTGGTGCTATTGGATCCTGTTCTGTCTTATTTGCCAAATCATT GTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTG
genomic: ATTGTATCTGGTGCTATTGGATCTTGTTCTGTCTTATTTGCAAAATCATTgtaagttact ... ggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttaatctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
tttttttttctttcgt CT-rich tract
ttaatctgattgattt 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
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gtaagttactttgtattgattgagatttatgttcatttgctgcagtttgaatatattttttaatctgattgatttttttttctttcgtcttttttctgtggctatttagGTCAAACATGCTGAGGCTAACAATGAGCAGCAGATACCAGTTCCATAGCTGGTTCACATACTCAATGCTTCTGTTGTTCCTCTTTACAGCTGGCTTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG