Sequence
atgc intronic sequence ATGC exonic sequenceGCAGTCTGGAAAACCTCAGGAGACTACAATTCATGCTAGCTTTACAAATTTGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattaccttcaaactgttgttttggggtcacctctgatgctcatattaactggtcagaaatggaatttttagtaaaaaagttaggacttaagaaccaac...
Basic information
species | Oryza sativa |
transcript | LOC_Os06g07090.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g07090.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G017421_T02 (Zea mays), 5'ss of exon 17
GCAGTCTGGAAAACCTCAGGAGACTACAATTCATGCTAGCTTTACAAATTTGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattaccttcaaactgttgttttggggtcacctctgatgctc---atattaactggtcagaaatggaatttttagtaaaaaagttaggacttaagaaccaac-
||| |||||||||||||||||||||||||| ||||| || |||||||| || ||| | |||| || |||||| |||| |||||||| || ||||||||| | | || | ||| | || || |||| | ||||| | | | |||| || | | | |
GCAACCTGGAAAACCTCAGGAGACTACAATTAATGCTTCTTTCACAAATTTAGCAACTACTGCATTAACAGATTTCGTCTTCCAGGCAGCCGTGCCAAAGgtagcaatcgc---ctctgacaccaatctcattcccgacagcagagatcttaaatagtcagccgtactgacca-atttgcttagtttctgctgtaaatcttata
upper sequence: LOC_Os06g07090.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G030144_T03 (Zea mays), 5'ss of exon 16
GCAGTCTGGAAAACCTCAGGAGACTACAATTCATGCTAGCTTTACAAATTTGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattaccttcaaactgttgttttggggtcacctctgatgctcatattaactggtcagaaatggaattt---ttagtaaaaaagttaggacttaagaaccaac
|| |||||||||||||||||||||||||| |||| || |||||||| || | | ||||||||| |||||| |||| ||||||||||| ||||||||| | | | | | | || | ||||||| | ||||| | | ||||| || ||| || ||
ACAACCTGGAAAACCTCAGGAGACTACAATTAGTGCTTCTTTCACAAATTTAGCAACCACTACATTCACAGATTTCGTCTTCCAGGCAGCTGTGCCAAAGgtagcatttgcttctgacactaatctcattcccgacaacagagatattaaatagtcagctgtactgatcaacttagtttctgctgtaaatcttgt-aatca--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|86430463|gb|CI082886.1|CI082886EST: TGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAG TTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGT
genomic: TGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattacctt ... tggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGTCTGGAAAACCTCAGGAGACTACAATTCATGCTAGCTTTACAAATTTGACATCTAATACATTCACGGATTTCATCTTTCAGGCAGCTGTACCAAAGgtattaccttcaaactgttgttttggggtcacctctgatgctcatattaactggtcagaaatggaatttttagtaaaaaagttaggacttaagaaccaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG