Sequence
atgc intronic sequence ATGC exonic sequenceAATCAGACACTGATCGCAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAAgtgagttgtaacatgtattctgtgttcaggaccttgggtggatgttacattttgttaatggaggtgtattccttcgtgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g06200.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g06200.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G052515_T01 (Zea mays), 5'ss of exon 10
AATCAGACACTGATCGCAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAAgtgagt-tgtaaca-------tgtattctgtgttcaggaccttgggtggatgttacattttgttaatggaggtgtattccttcgtgcag
|||||||| || || || || ||||| || ||||| ||||||||||| ||||||||||||||||| ||| || || || | ||| || | | | | | | ||||||||||| | ||||||||| | ||| | |||||
AATCAGACTCTAATTGCTATAAAAGCACCGCATGGCACAACTTTGGAAGTCCCAGATCCTGATGAGgtgggtctgcaaaaccatccttgtttttcatactgggtgtcctagagggatgttacatatcgttaatggaagca-attttcttttgcag
upper sequence: LOC_Os12g06200.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT2G36010.2 (Arabidopsis thaliana), 5'ss of exon 9
AATCAGACACTGATCGCAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAAgtgagttgtaacatgtattctgtgttcaggaccttgggtggatgttacatttt-----gttaatggaggtgtattccttcgtgcag---
|| ||||| ||||| || ||||||| |||||||| ||||||||||| || || ||||| |||||||| ||| | | || | | | | | ||||| ||| |||| | | | | |||
AACCAGACTCTGATAGCCGTCAAAGCTCCTCATGGCACAACTTTGGAAGTGCCTGATCCAGATGAAgttagtctttttcagcgaccttggatgacatctgccattctttgttagattccaaaacgttattataatgtttcttctttacttgacagMapped 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|58679104|gb|CK067791.1|CK067791EST: CAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAA GTGAATGATTATCCACAGAGGAGATATAGGATTGTTCTAAGGAGTACTATG
genomic: CAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAAgtgagttgta ... cttcgtgcagGTGAATGATTATCCACAGAGGAGATATAGGATTGTTCTAAGGAGTACTATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATCAGACACTGATCGCAATCAAAGCGCCTCATGGTACAACTTTGGAGGTCCCAGATCCTGATGAAgtgagttgtaacatgtattctgtgttcaggaccttgggtggatgttacattttgttaatggaggtgtattccttcgtgcag
- - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - TGGAGG