Sequence
atgc intronic sequence ATGC exonic sequence...tgtaactgtactctaagacaagttatatgtggaatatggggtggtactcactttttgttcctttcttgttttttggctaaatctttcttgtatttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g18310.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM5G824405_T01 (Zea mays), 3'ss of exon 9
tgtaactgtactctaagacaagttatatgtggaatatggggtggtactcactttttgttcctttcttgttttt-tggctaaatctttcttgta-tttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
| || | || ||| | || | | || | | || |||| ||||| | | | ||| | | ||||||||||||| || |||||||||| ||||||||||||||||||||||| |||||||||
------------gtcag-tgaattgtatcatgcatgcgcttctagaaacatatactattttcttctcatttttcttgtaagatcgtcaccatgctttttcagGTGGCTGCATTAGCAATGGAAGATATGCTATCTTGGATGCAGGAGGGTGGTCAG
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S242_66V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------------tgtaactgtactctaag-acaagttatatgtggaatatggggtggtactcactttttgttcctttcttgttttt--tggctaaatctttcttgtatttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
| | | | || | || || || | | || || | | || | ||| | |||| | || | || || | |||||||| ||| |||||||||| |||||||| | |||||| | ||||||||||||
gtacttatgactctctgattgacctgttatggtgattatttaggtggaatttgtacccacatctttggttgtttatatagattcgctccgaggtagtttgtaatgttctgctggttggggtgggctgcagGTGGCTGCTTTAGCAATGGAAGATATGCTTGCCTGGATGGAAGAAGGTGGTCAG
upper sequence: LOC_Os03g18310.3 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S215_89V6.1 (Physcomitrella patens), 3'ss of exon 10
tgtaactgtactctaagacaagttatatgtggaatatggggtggtactcactttttgttcctttcttgttttttggctaaatctttcttgtattttt-----cagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
| || | | | || || |||| | | || || | | ||| | | | |||| | ||||| || || |||||||| |||||||||||||| || ||||| |||||||| | ||||||||||||
--ttacgatgtcgcgatatttatt-tagatggagt-taatgtttagctatcgatgaattcgctacgcaatagc-atctaactttttctggtgggttggggtgcagGTGGCTGCTCTAGCAATGGAAGACATGCTTGCTTGGATGGAAGAAGGTGGTCAGMapped 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|58689570|gb|CK078257.1|CK078257EST: CTGATTTCTTCCGTGGAGACAACAAAGAAGGTGTGGAGGCACGCAATGAG GTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGT
genomic: CTGATTTCTTCCGTGGAGACAACAAAGAAGGTGTGGAGGCACGCAATGAGgtcagtgcac ... tatttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcactttttgttcctttcttgttttttggctaaatctttcttgtatttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
tctttcttgtattttt CT-rich tract
tttcttgtattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaactgtactctaagacaagttatatgtggaatatggggtggtactcactttttgttcctttcttgttttttggctaaatctttcttgtatttttcagGTGGCGGCTCTAGCAATGGAGGATATGCTATCTTGGATGCAGGAAGGTGGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - aagacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcttg