Sequence
atgc intronic sequence ATGC exonic sequenceGAAAAGAACCGGATAAATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAAgtaaatgttactcagttcttttgattgtcttgtttggacagcaactgacacaatttatccttttag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g14510.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G170532_T02 (Zea mays), 5'ss of exon 4
GAAAAGAACCGGATAAATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAAgtaaatgttactcagttcttttgattgtcttgtttggacagcaactgacacaatttatccttttag
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GAGAAGAATAGGATAAATAAAGATGGAGAGCTTGTTATATCTTCTACAAAAACTAGAACACAGAAgtaattattgttctattatccttctagtctt-tttttattgcaactgatttgatttaccatcttag
upper sequence: LOC_Os03g14510.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv02s0241g00090.t01 (Vitis vinifera), 5'ss of exon 5
GAAAAGAACCGGATAAATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAAgtaaatgt-tactcagttcttttgattgtcttg---tttgga---cagcaactgacacaatttatccttttag---------------
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GAAAAGAATCGGATTAACAAAGATGGGGAGATTGTGATTTCTTCAACAAAAACTAGAACACAGAAgttaatttctgcccacttctcctttttgttatacattttggttctctgttcccaaagcaattggtttcattctgccattcttcttcagMapped 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|88569683|gb|CI660858.1|CI660858EST: AATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAA GGGAAACATTGAAGATGCTTTGCAGAAAAT
genomic: AATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAAgtaaatgtta ... atccttttagGGGAAACATTGAAGATGCTTTGCAGAAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAAAGAACCGGATAAATAAAGATGGGGAGCTTGTGATATCTTCTACAAAAACTAGGACACAAAAgtaaatgttactcagttcttttgattgtcttgtttggacagcaactgacacaatttatccttttag
- - - - - - - - - AAGATG
- - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - GAGCTT