Sequence
atgc intronic sequence ATGC exonic sequenceGGTCATGAGGATCGATATTCCATTTATATCCATGCATCGCGTGAAAGACCTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAGgtactaatgttcacccccacactgtgtacttgtttgtttcttttcttgctttatcttaactcatctgcttagcaaggtgttatgaacaataagaaatgtt...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g07880.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g07880.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G138505_T01 (Zea mays), 5'ss of exon 3
GGTCATGAGGATCGATATTCCATTTATATCCATGCATCGCGTGAAAGACCTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAGgtactaatgttcacccccacactgtgtacttgtttgtttcttttcttgctttatcttaactcatctgcttagcaaggtgttatgaacaataagaaatgtt----
|||||||| | |||||||| || |||||||||||||| ||||||| ||||||||||||||| ||| | |||||||| || || ||||| |||||||||||||| ||||||| || ||| | |||| |||| | | | | | ||| ||| | | | | || ||| | | || ||
GGTCATGATGGCCGATATTCTATCTATATCCATGCATCTCGTGAAAAACCTGTACATTCTAGCTCTCTTTTTGTTGGGCGTGAAATTCACAGTGAAAAGgtactccctcgcaccccccttacaagtgctt--tagtttgttttatctgtaaacatgtaatca--tgccttgacaattcttgtgattgttgaaaatggtgcatt
upper sequence: LOC_Os02g07880.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G124151_T01 (Zea mays), 5'ss of exon 3
GGTCATGAGGATCGATATTCCATTTATATCCATGCATCGCGTGAAAGACCTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAGgtactaatgttcacccccacactgtgtacttgtttgtttcttttcttgctttatct--taactcatctgctt-agcaaggtgttatgaaca-ataagaaatgtt-
|||||||| | |||||||||||| |||||||||||||| ||||||| ||||||||||||||| || | |||||||| || || |||| |||||||||||||| |||| ||| |||| | || || | || || | | || ||||||| | | | ||| ||| | ||| |||| |
GGTCATGATGGTCGATATTCCATCTATATCCATGCATCTCGTGAAATACCTGTACATTCTAGCTCCCTCTTTGTTGGACGTGAAATTCGCAGTGAAAAGgtact----ctcacaccc-tgctgtacaagtgcttttagtttgctttatctgacctggtaactcagccacatgagcggggtctagagaagggataaaccgagacaMapped 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|29662010|gb|CB658285.1|CB658285EST: CTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAG GTTGTATGGGGGAGGATTTCAATGGTTGATGCGGAGAAGAGGCTGCTAGCA
genomic: CTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAGgtactaatgt ... gtatgtgcagGTTGTATGGGGGAGGATTTCAATGGTTGATGCGGAGAAGAGGCTGCTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCATGAGGATCGATATTCCATTTATATCCATGCATCGCGTGAAAGACCTGTACATTCTAGTTCTTTGTTTGTTGGCCGAGAGATTCATAGTGAAAAGgtactaatgttcacccccacactgtgtacttgtttgtttcttttcttgctttatcttaactcatctgcttagcaaggtgttatgaacaataagaaatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccccac