Sequence
atgc intronic sequence ATGC exonic sequencegtatgaacattttataccatgctcttattccgagtttatgttcaaaacataacctaatatttttatcctcacctgaccttttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
Basic information
species | Oryza sativa |
transcript | LOC_Os08g10290.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g10290.1 (Oryza sativa), 3'ss of exon 22
lower sequence: Vv10s0092g00570.t01 (Vitis vinifera), 3'ss of exon 19
gtatgaacatttta-taccatgctcttatt-ccgagtttat----gttcaaaacataacctaatatttttatcctcacctgacc-------------ttttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
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-----gacattcaaatccctttcttatattgttgaacttgtcagtgttacaaaaaaaccttcatctgattgacctcaactaagtcatttcatgtaaattttctagTGGCTATCTAGCACCAGAGTATGCAATGCGCGGGCACCTGACAGAAAAGGCTGATGTCTTCAGTTTTGGAGTCGTTGCTCTAGAGATCCTGAGTGGAAGA
upper sequence: LOC_Os08g10290.1 (Oryza sativa), 3'ss of exon 22
lower sequence: Vv10s0092g00710.t01 (Vitis vinifera), 3'ss of exon 22
----gtatgaacattttataccatgctctt-attccgagtttatgtt--caaaacataacctaatatttttatcctcacctgacctt--------ttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
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atttctttgaat-ttttaggccttattgttgaatttgtacctataataacatatcttaatctaattgacctccactaagcgaattttatgtaaaattccagTGGCTATCTGGCACCAGAGTATGCAATGCGCGGGCATCTGACAGAGAAGGCTGATGTTTTTGGATTTGGTGTAGTGGCTCTAGAGATCCTCAGCGGGAGA
upper sequence: LOC_Os08g10290.1 (Oryza sativa), 3'ss of exon 22
lower sequence: Vv00s0125g00090.t01 (Vitis vinifera), 3'ss of exon 22
gtatgaacattttataccatgctcttattccgagtttatgttcaa-aacataacctaatatttttatcctcacctgacct-------------tttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
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aattcagtgaattttgaggctttattgttgaatttgtacgtataatgacatatcttcatctacttgacctccactaagccaattttatgtaaacttccagTGGCTATCTGGCACCAGAGTATGCAATGCGTGGGCATCTGACAGAGAAGGCTGATGTTTTTGGATTTGGCGTAGTTGCTCTAGAGATCCTCAGTGGGAGAMapped 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|87017821|gb|CI273843.1|CI273843EST: CTCTATGATGAGAAG-AGACCCATATCAGCACAAAAATAGCCGGCACGCT TGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGC
genomic: CTCTATGATGAGAAGAAGACCCATATCAGCACAAAAATAGCCGGCACGCTgtatgaacat ... ccttttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtttatgttcaaaacataacctaatatttttatcctcacctgaccttttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
ccttttc CT-rich tract
aaaacataacctaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaacattttataccatgctcttattccgagtttatgttcaaaacataacctaatatttttatcctcacctgaccttttcaagTGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCCGACGTTTTTGCATTTGGGGTAGTCGCCTTGGAGACTGTTGCTGGTCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA