Sequence
atgc intronic sequence ATGC exonic sequence...tttagattgttgaattattgatagtatatattttggtgcttcattgaaattaatttagaatactttaatggcacgacttatgagagtactttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g03920.5 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g03920.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G057158_T02 (Zea mays), 3'ss of exon 6
---tttagattgttgaattattgatagtatatattttggtgcttcattgaaattaatttagaatactttaatggcacgacttatgagagtactttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG
|| | | || || | || | | | | | | || || || | || | | ||| | || || | | | |||| ||| | ||||||| |||||||||| |||||| ||||||||||||||| |||||||||||||||||||||||||| | ||| || ||||
aacttgacttaatttaactttttagacagttgactgcctttctaaatggatttacatgtgcccttgcttattta-acaaccttttgaa--acttgaatcctagGCAATGTGAACCTCAACACCTTGATGAACATGTTCAGTGGGCTTGGTGCTGGTGGTGGCCTAGGTGTTCCAAATGCTCCTAATG
upper sequence: LOC_Os03g03920.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G127101_T01 (Zea mays), 3'ss of exon 6
tttagattgttgaattattgatagtatatattttggtgcttcattgaaattaatttagaatact-ttaatggcacgacttatgagagtactttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG
|| | | || | ||| | || | || | ||| | || | | | || |||| || | |||| ||| | ||||||| |||||||||| |||||| ||||||||| ||||| |||||||||||||||||||||||||| | ||| || ||||
cttgatctaattaaacttctttagacagttgactgcctttctatgtagatttacatattcccttgcttgtttaacaacttttggaaa-acttgaatcctagGCAATGTCAACCTCAACACCTTGATGAACATGTTCAGCGGGCTTGGTGCTGGTGGTGGCCTAGGTGTTCCAAATGCTCCTAATGMapped 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|86426364|gb|CI071461.1|CI071461EST: CTGGCCCAGAGCGAACCCNATCGGGTGCTGGTGCAG GCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
genomic: CTGGCCCAGAGCGAACCCAATCAGGTGCTGGTGCAGgtaacttcct ... ttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaattaatttagaatactttaatggcacgacttatgagagtactttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG
taatttagaatacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttagattgttgaattattgatagtatatattttggtgcttcattgaaattaatttagaatactttaatggcacgacttatgagagtactttaatgccagGCAATACTAACCTCAACAATCTGATGAGCATGTTCAGTGGGCTCGGTGCTGGTGGTGGCCTAGGTGTTCCTAGTGCACCCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG