Sequence
atgc intronic sequence ATGC exonic sequenceAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTCCCAAGgtaccttccgccctccatttcttttttcgcacttcatttccttcccccaaaattactagacttcatgcatgcatctatttttctttccctcaaaggtcat...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g02480.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g02480.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G063216_T03 (Zea mays), 5'ss of exon 2
AGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTCCCAAGgtaccttccgccctc-catttcttttttcgcacttcatttccttcccccaaaattactagacttcatgcatgcatct-atttttctttccctcaaaggtcat
||||||| || ||||| | ||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||| |||||||| ||| |||||||||||| | ||| | | || || | | || ||| | ||||||||| | | || | | | | | | | | | || | | | |
AGGAGCGCACCTGGACCTCGGACACGTACGCTCCGTACGACGACGGGCACCAGTGGAGGAAGTACGGCGAGAAGAAGCTCTCCAACTCCCACTTCCCAAGgttcgttctttcatagcacagctcctcttgcctacggtttgttccccccaaaaggccaaaacaagagtcttttgtttcagctatgtgtcgcgcggatggt--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|25799374|gb|CA755335.1|CA755335EST: CAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTCCCAAG GTTCTATTACAGATGCACCTACNAGAATGACATGAAGTGCCCTGCTACGAA
genomic: CAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTCCCAAGgtaccttccg ... ctatttgcagGTTCTATTACAGATGCACCTACAAGAATGACATGAAGTGCCCTGCTACGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGACGACGGCCACCAGTGGAGGAAGTACGGCGAGAAGAAACTCTCCAATTCCAACTTCCCAAGgtaccttccgccctccatttcttttttcgcacttcatttccttcccccaaaattactagacttcatgcatgcatctatttttctttccctcaaaggtcat
- - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccgccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccccc