Sequence
atgc intronic sequence ATGC exonic sequenceGAGGCGGCGGGGGCGGCGGTGGCGCCGGCGAAGCTGGGTCTGTACTCGTACTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAGgtacgttgtgcccgcgccgcgcgattgccttcctctcgtcgtcatcttctatgcgtggttggctcatggccgggcagagtgagtgaacctggtgcgtgcgtgcgtgcgggtgattttgatgtctgtctcctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g35590.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g35590.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G064255_T02 (Zea mays), 5'ss of exon 1
GAGGCGGCGGGGGCGGCGGTGGCGCCGGCGAAGCTGGGTCTGTACTCGTACTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAGgtacgttgtgcccg--cgccgcgcgattgccttcctctcgtcgtcatcttctatgcgtggttggctcatggccgggcagagtgagtgaacctggtgcgtgcgtgcgtgcgggtgattttgatgtctgtctcctgcag
| ||||| ||||| || | || || | ||| ||||||||||||||||| ||||||||||| ||||| | ||||||||| ||||| ||||||||| ||| || || | |||| || || | | ||| | || | || | | || | | | || | || | || | | | ||| |
CAAATGGCGGAGGCGGAGGCGACGGTGGGGCGACTGATGCTGTACTCGTACTGGCGCAGCTCGTGCTCCCACCGTGCCCGCATCGCTCTCAATCTCAAAGgtgcgtgctgttcggccaccgctgaataagactcgggccattgtc-tattggacgcattgatg-cattcgtttcgattgattcgatgtgtgggttgttttttttc-tgcag--------------------------
upper sequence: LOC_Os02g35590.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA17G00700.2 (Glycine max), 5'ss of exon 2
GAGGCGGCGGGGGCGGCGGTGGCGCCGGCGAAGCTGGGTCTGTACTCGTACTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAGgtacgttgtgcccgcgccgcgcgattgccttcctctcgtcgtcatcttctatgcgtggttggctcatggccgggcagagtgagtgaacctggtgcgtgcgtgcgtgcgggtgattttgatgtctgtctcctgcag
| ||| ||| | ||| ||| ||||| ||||| ||| ||||||| || || ||||| ||||| ||||| ||||||||||||||||| | | | | | | || |||| | || || ||| | | |||| | | | | |
--------GCAAGCGCAAGTGTTGGTAAAGAA-CTGACGCTGTATTCGTATTGGAGGAGCTCTTGTTCCCACCGAGTCCGAATCGCTCTCAACCTCAAAGgtactctcctttcactacactccctttcctttttttcccttctctcatct---cactttccactcacctttgcatacacatacag--------------------------------------------------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|163920379|gb|EG714466.1|EG714466EST: CTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAG GATTGGAGTACGAGTACAAGGCGGTGAACCTGCTCAAGGGGGAGCACTCTG
genomic: CTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAGgtacgttgtg ... tctcctgcagGATTGGAGTACGAGTACAAGGCGGTGAACCTGCTCAAGGGGGAGCACTCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGCGGCGGGGGCGGCGGTGGCGCCGGCGAAGCTGGGTCTGTACTCGTACTGGCGGAGCTCGTGCTCGCACCGCGTCCGCATCGCCCTCAACCTCAAAGgtacgttgtgcccgcgccgcgcgattgccttcctctcgtcgtcatcttctatgcgtggttggctcatggccgggcagagtgagtgaacctggtgcgtgcgtgcgtgcgggtgattttgatgtctgtctcctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT