Sequence
atgc intronic sequence ATGC exonic sequenceTGAATTTGAGGATGGCAGCTCATTCCATCTGCCTGCTGAGTTTCTTAGAGTGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAGgtaatgcaccatgcactttctgtactcagtggcacacatggtcttctgagcttgttggatggccaatgtggtgcatttttactcattcacttgttgtatc...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g10430.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g10430.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G006277_T02 (Zea mays), 5'ss of exon 2
TGAATTTGAGGATGGCAGCTCATTCCATCTGCCTGCTGAGTTTCTTAGAGTGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAGgtaatgcaccatgcactttctgtactcagtggcaca-catggtcttctgagcttgttg--gatggccaatgtggtgcatttttactcattcacttgttgtatc
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-----------------------------------CAGAATTTCTCAGAGTATACAGCCCAGCAGCTGATAGCAAAATCCGATCAGTGGGCGGTGAAAAGgtaatttctgatatactttacacactccatgtcacaatagggtttcttgagcttttttttgttagcccaaatga--cattttttgtggttaagaatttagga-
upper sequence: LOC_Os02g10430.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G006277_T01 (Zea mays), 5'ss of exon 2
TGAATTTGAGGATGGCAGCTCATTCCATCTGCCTGCTGAGTTTCTTAGAGTGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAGgtaatgcaccatgcactttctgtactcagtggcaca-catggtcttctgagcttgttg--gatggccaatgtggtgcatttttactcattcacttgttgtatc
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CGAATTCGCTGATGGTAGCTCATTTCACCTGTCAGCAGAATTTCTCAGAGTATACAGCCCAGCAGCTGATAGCAAAATCCGATCAGTGGGCGGTGAAAAGgtaatttctgatatactttacacactccatgtcacaatagggtttcttgagcttttttttgttagcccaaatga--cattttttgtggttaagaatttagga-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|29659935|gb|CB656210.1|CB656210EST: TGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAG GTTATATTTGGGCGGCGACATGTTGGAATAATGTCAGCTGAATCAGTAGGA
genomic: TGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAGgtaatgcacc ... ctttgatcagGTTATATTTGGGCGGCGACATGTTGGAATAATGTCAGCTGAATCAGTAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAATTTGAGGATGGCAGCTCATTCCATCTGCCTGCTGAGTTTCTTAGAGTGTACAGCCCAGCAGCTGATAGCAAAATCAGATCAGTAGCTGGTGAGAAGgtaatgcaccatgcactttctgtactcagtggcacacatggtcttctgagcttgttggatggccaatgtggtgcatttttactcattcacttgttgtatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA