Sequence
atgc intronic sequence ATGC exonic sequencegttagcaaatctgctttcactaacctgtctacaattcacagaaacagctggtatgtaaagaagcaatatatatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCTTGGGAATGTACTGGCACCCTCAGTGCTTCCGCTGTTCTTCCTGTCGC
Basic information
species | Oryza sativa |
transcript | LOC_Os03g16090.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g16090.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G160198_T02 (Zea mays), 3'ss of exon 4
---------------------gttagcaaat-ctgctttcactaacctgtctacaattcacagaaacagctggtatgtaaagaagcaatatatatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCTTGGGAATGTACTGGCACCCTCAGTGCTTCCGCTGTTCTTCCTGTCGC
| | || | ||| | | | ||| || | | || ||||| ||| || | | | |||||| || || || ||||||||||||||||||| ||||||||||||||||||| |||| || |||||||||||||||||||||||||| ||||| |
gtcaaccgctatcacatcacaatcaccatttactggcaccctaagaccttctctaacgcgccaaagcagctca-atgcc----gtcagtgcccgtgctgcagGGTATGCGGAGGCTGCAAGCATGAGATAGGGCGTGGCCATTACTTGAGCTGCATGGGCATTTACTGGCACCCTCAGTGCTTCCGCTGCAGGTCCTGCGGT
upper sequence: LOC_Os03g16090.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G151934_T02 (Zea mays), 3'ss of exon 4
------------------------gttagcaaatctgctttcactaacctgtctacaattcacagaaacagctggtatgtaaagaagcaatatatatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCTTGGGAATGTACTGGCACCCTCAGTGCTTCCGCTGTTCTTCCTGTCGC
|| | | || | | | | | | | || | ||| | | | || | |||| | || | || ||||||||||||||||||||||||||||||||||||||| |||| || |||||||||||||||||||||||||| ||||| ||
gttagccgccgctcgctcttttacgtcaccgtttcaccacacgcctcgccaccgatgcgctaataaacaaaatggctcaaatgtcgtccgtgcccatgctgcagGCTGTGCGCAGGCTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCATGGGGATTTACTGGCACCCTCAGTGCTTCCGCTGCAACTCCTGCGGCMapped 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|29635593|gb|CB640602.1|CB640602EST: TACAATCCTTGTGCACCCTCTCAGACCCAAGCCAGGTCGAGAGGATACAA GGTCTGTGGGGGTTGCAAGCATGAGATAAGGCATGGCCATTACTTGAGCTG
genomic: TACAATCCTTGTGCACCCTCTCAGACCCAGGCCAGGTCGAGAGGATACAGgttagcaaat ... tatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtctacaattcacagaaacagctggtatgtaaagaagcaatatatatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCTTGGGAATGTACTGGCACCCTCAGTGCTTCCGCTGTTCTTCCTGTCGC
tatctttc CT-rich tract
aatatatatctttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcaaatctgctttcactaacctgtctacaattcacagaaacagctggtatgtaaagaagcaatatatatctttcagGGTCTGTGGGGGTTGCAAGCATGAGATAGGGCATGGCCATTACTTGAGCTGCTTGGGAATGTACTGGCACCCTCAGTGCTTCCGCTGTTCTTCCTGTCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT