Sequence
atgc intronic sequence ATGC exonic sequenceTGTGGCGGCGGGGCGGGAGGCCTGCCAACCTACCGGGTGGCGCCGCAGCTGGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgcctcctctcccctccccactgtggcggcgtttgtagagtccttttttcctttccttcctcgcattctgtgaacgatttgacatctagactgctgctgtgttggtcag
Basic information
species | Oryza sativa |
transcript | LOC_Os07g22400.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g22400.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G130351_T01 (Zea mays), 5'ss of exon 1
TGTGGCGGCGGGGCGGGAGGCCTGCCAACCTACCGGGTGGCGCCGCAGCTGGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgcctcctctcccctccccactgtggcggcgtttgtagagtccttttttcctttccttcctcgcattctgtgaacgatttgacatctagactgctgctgtgttggtcag
|| ||||| ||||| | |||||| |||||| | |||||||||||| ||||||||| |||| ||||| |||||||||||||||||||||||||||||||||| | ||| | | || | | | |||||| | ||||| | | | ||
GCCGGTGGCGGCGCGGGGGCCCTGCCGACCTACAAAGCGGCGCCGCAGCTCGAGGTGCGGCTGGAGGAGTTCGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgg-----cattttcctggctagaaaaatgcacccaacctggcttcctttcgttacttcctgcgctgtgatgtgcag------------------------------------
upper sequence: LOC_Os07g22400.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G044317_T04 (Zea mays), 5'ss of exon 1
TGTGGCGGCGGGGCGGGAGGCCTGCCAACCTACCGGGTGGCGCCGCAGCTGGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgcctcctctcccctccccactgtggcggcgtttgtagagtccttttttcctttccttcctcgcattctgtgaacgatttgacatctagactgctgctgtgttggtcag
| |||||||| ||||| | |||||| |||||| || |||||||||||| ||||||||| |||| ||||| |||||||||||||||||||||||||||||||||| | || | | | | | | | | ||| |||| || ||||| | || || ||| || ||| | |||| || | |||
GGCGGCGGCGGCGCGGGGGCCCTGCCGACCTACAAGGCGGCGCCGCAGCTCGAGGTGCGGCTGGAGGAGTTCGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgg-cttcttcctggcgagagaaatgcttcccgatcccgcgtgg--cttccttccgttacttcc-cagatcttgctaactcgttt-cattgcgtgcgctg--gtaacgagcag
upper sequence: LOC_Os07g22400.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT1G67320.2 (Arabidopsis thaliana), 5'ss of exon 1
TGTGGCGGCGGGGCGGGAGGCCTGCCAACCTACCGGGTGGCGCCGCAGCTGGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgcctcctctcccctccccactgtggcggcgtttgtagagtccttttttcctttccttcctcgcattctgtgaacgatttgacatctagactgctgctgtgttggtcag
| || | || || || | || || || |||| || || || |||||||||||||||||||||||||| ||| | |||||| || | | || | | | || || || || || ||| || | || || || ||| | || | | || |||| | |
GACGTCGTTTCAACTCCCACGCTTCCTCTGTATCTTACAGCTCCACACATGGAAGTCCGCTTAGAAGAGTTTGAGCTCTTCGCCATCGATCGCTTACGAGgtttcaa----tcaaattcaaaccaaaatttcgctgctttcgtgtagaat------------ctttctggggttttgaaaa--gttt----tttaaatttct-ttgtgatag----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|58665435|gb|CK054121.1|CK054121EST: GGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAG TATTGAAGGGGATCGCCGACGGGCTCTCGCGAGGGAAGAGACCGGAGGAAA
genomic: GGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgc ... tgttggtcagTATTGAAGGGGATCGCCGACGGGCTCTCGCGAGGGAAGAGACCGGAGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGGCGGCGGGGCGGGAGGCCTGCCAACCTACCGGGTGGCGCCGCAGCTGGAGGTGCGGTTGGAAGAGTTTGAGCTCTTCGCCATCGACCGCCTCCGAGgtgcgggcgcctcctctcccctccccactgtggcggcgtttgtagagtccttttttcctttccttcctcgcattctgtgaacgatttgacatctagactgctgctgtgttggtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA