Sequence
atgc intronic sequence ATGC exonic sequenceATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctttgatgtactgaagtgaagtctgtttgcttctgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g68860.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g68860.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G107491_T01 (Zea mays), 5'ss of exon 4
ATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctttgatgtactgaagtgaagtctg-tttgcttctgtag
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ATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTTCTCCCGgtttgttttttcttgcca------gttacatgtcct---cttctaca--tatgtctgtttgttttgctgaaaaggagtctactttacttttgtag
upper sequence: LOC_Os01g68860.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G107491_T03 (Zea mays), 5'ss of exon 4
ATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctttgatgtactgaagtgaagtctg-tttgcttctgtag----------------
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ATGCAAGTTTGGTCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCCGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTTCTCCCGgtttgttttttcttgcca------gttacatgtcct---cttctaca--tatgtctgtttgttttgctgaaaaggagtctactttacttttgtagaatgaaaaggagtgtg
upper sequence: LOC_Os01g68860.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G087032_T01 (Zea mays), 5'ss of exon 4
ATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctttgatgtactgaagtgaagtctg-tttgcttctgtag
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ATGCAAGTTTGGCCCTACATGCAAATTTCACCATCCCAGGGAAAAGGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATCAGGATATCCACTCCGCCCGgtttgtcttccgttgc----------catttatatctcctcttc-tacatatgtctgtttgttttgctgaaaagaagtccactttgcttctgtagMapped 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|218503721|gb|FG969763.1|FG969763EST: CAGCTAAACACATTAGGATATCCACTCCGACCG AGTGAAAAGGAGTGTGCATATTACTTAAAAACAGGACAGTGTAAATATGGG
genomic: CAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtt ... gcttctgtagAGTGAAAAGGAGTGTGCATATTACTTAAAAACAGGACAGTGTAAATATGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCAAGTTTGGGCCTACATGCAAATTCCATCATCCCAGAGAAAAAGCTGGAATTGCAGGGAGGGTGCAGCTAAACACATTAGGATATCCACTCCGACCGgtttgtagtttattgctgcagcacatcatctgcccttcctttttatagtttcttctctttgatgtactgaagtgaagtctgtttgcttctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT