Sequence
atgc intronic sequence ATGC exonic sequencegtttgaatgctcaagcattatgttaataggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g01070.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g01070.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G147587_T01 (Zea mays), 3'ss of exon 7
gtttgaa---tgctcaagcattatg---ttaataggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
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gtttgaagcttacccatgtgcttggcttttatcaagatctggtgtaatttagtggagactga--caaagctgtttca-tagGTTACAATCATCCATGGAGATCTAAGTGCCTTCCAGAAGGAAATGGAAACAGTTCATCTCGTAGTTCGTAGTCTG
upper sequence: LOC_Os01g01070.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G432653_T01 (Zea mays), 3'ss of exon 2
gtttgaa---tgctcaagcattatg---ttaataggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
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gtttgaagcttacccatatgctttgcttttatcaagatctggtgtaatttagtggagactga---aaaagctatttcatagGTTACAATCATCCATGGAGATCTAAGTGCCTTCCAGAAGGAAATGGAAACAGTTCATCTCGTAGTTCGTAGTCTG
upper sequence: LOC_Os01g01070.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G078711_T01 (Zea mays), 3'ss of exon 7
-----------gtttgaatgctcaagcattatgttaa---taggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
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gtctgaggcttacccatatgctttgcttttatcaggaattcaagatctggtgtaatttagta-agactgatg--aaattattt--atagGTCACAATCATCCATGGAGATCTAAGTGCCTTCCAGAAGGAAATGGAAACAGTTCATCTTGTAGTTCGTAGTCTGMapped 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|58687220|gb|CK075907.1|CK075907EST: ATTGTACTTTAGATGAATGCCAGGAAATTACAGAATCCACAAGAAAAGAG GTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCA
genomic: ATTGTACTTTAGATGAATGCCAGGAAATTACAGAATCCACAAGAAAAGAGgtttgaatgc ... aattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttaataggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
aattaat putative branch site (score: 3)
ataggattttatatag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaatgctcaagcattatgttaataggattttatatagtttattggaggttgatacaaaattaattcaatagGTTACAGTCATCCATGAAGATATAAGTGCCTTCCAGGAGGAAATGCAATCAGTTCATCTTGTGGTTCGTACTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA