Sequence
atgc intronic sequence ATGC exonic sequenceTTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcatatgtaatgcctcttcctttcattgtttatctccattttcttttcttgtgattcctgcatttgacttgtgtacatcatctgcgtattttctaag
Basic information
species | Oryza sativa |
transcript | LOC_Os07g39010.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G060762_T01 (Zea mays), 5'ss of exon 4
TTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcatatgtaatgcctcttcctttcattgtttatctccattttcttttcttgtgattcctgcatttgacttgtgtacatcatctgcgtattttctaag
|||||| |||||||| ||||||||| |||||||||||||||| |||||||| || ||||||| |||||||| |||||||||||||| ||| ||||||||||||| || || ||||| | || ||||||| | || | || || | ||||| | || || | ||| | | | | |||||
-----------AACTTATGGGAACTAATTCATCTACTTTGGAGACTGTTGGATACAGCACATTTGCCACTATTTTTAATGTTGGTTGGGCAGTTACTCAAGTCGCTCATATgtaatggct-tttctttctctacttctctccatgcttttc---tatggtttcagcattacatttatggatatcttttatatgctc-ctaag
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G121458_T02 (Zea mays), 5'ss of exon 8
TTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcatatgtaatgcctcttcctttcattgtttatctccattttcttttcttgtgattcctgcatttgacttgtgtacatcatctgcgtattttctaag
|||||| ||||| || | ||||||| |||||||||||||||| |||||||| ||||||||||| |||||||| |||||||||||||| ||| |||| |||||||| || || ||||| | || ||| || | || | || || | |
-----------AACTTATGGGAATTAATACATCTACTTTGGAGACTGTTGGATACAGCACATTTGCTGCTATTTTTAATGTTGGTTGGGCAGTTACTCAAGTCGCTCACATgtaatggct-tttctttccctacttctcttcacacttttc---tatggtttcag-------------------------------------
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G121458_T01 (Zea mays), 5'ss of exon 4
TTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcatatgtaatgcctcttcctttcattgtttatctccattttcttttcttgtgattcctgcatttgacttgtgtacatcatctgcgtattttctaag
|||||| ||||| || | ||||||| |||||||||||||||| |||||||| ||||||||||| |||||||| |||||||||||||| ||| |||| |||||||| || || ||||| | || ||| || | || | || || | ||||| | || || | ||| | | | | |||||
-----------AACTTATGGGAATTAATACATCTACTTTGGAGACTGTTGGATACAGCACATTTGCTGCTATTTTTAATGTTGGTTGGGCAGTTACTCAAGTCGCTCACATgtaatggct-tttctttccctacttctcttcacacttttc---tatggtttcagcattacatttatggatatcttttatatgctc-ctaagMapped 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|29655796|gb|CB652071.1|CB652071EST: GATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAG GTCAATGGTGAACTGCATGACATCAAACCCAACAAGTCGGGTTGCATTACT
genomic: GATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcata ... attttctaagGTCAATGGTGAACTGCATGACATCAAACCCAACAAGTCGGGTTGCATTAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGCACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGgtctctcatatgtaatgcctcttcctttcattgtttatctccattttcttttcttgtgattcctgcatttgacttgtgtacatcatctgcgtattttctaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT