Sequence
atgc intronic sequence ATGC exonic sequenceGTTTACTGCTTTGTGCAAAAACAAAGCTTGCCAAAGCTCAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaactactctttttcataattcgaaaaaaaattcttgctattttttcatcttgtttaagatatttatag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g17920.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g17920.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G158261_T02 (Zea mays), 5'ss of exon 7
GTTTACTGCTTTGTGCAAAAACAAAGCTTGCCAAAGCTCAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaa--ctactctt--tttcataa----ttcgaaaaaaaattcttgctattttttcatct----tgtttaagat-atttatag-----------
| | ||||||||||| || ||||| ||||||||| || |||||| |||||||||||||||| |||| ||| |||| ||||| |||| ||||| || || ||| | || || || |||| ||| | | || | || || |||| ||||||||
GCCTCCTGCTTTGTGCCAAGACAAAAGTTGCCAAAGTTCGACTTGCATCTTATTTTGCTGAAGGTGCTATAAATGCTGCAAAGAAAAGgtgtaaaaacttatcattaattttagaagatattttttcaagtattcacattatgtatgcagttcaagtgattgagatgatttatagggataaatcag
upper sequence: LOC_Os03g17920.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G158261_T03 (Zea mays), 5'ss of exon 6
GTTTACTGCTTTGTGCAAAAACAAAGCTTGCCAAAGCTCAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaa--ctactctt--tttcataa----ttcgaaaaaaaattcttgctattttttcatct----tgtttaagat-atttatag
| | ||||||||||| || ||||| ||||||||| || |||||| |||||||||||||||| |||| ||| |||| ||||| |||| ||||| || || ||| | || || || |||| ||| | | || | || || |||| ||||||||
GCCTCCTGCTTTGTGCCAAGACAAAAGTTGCCAAAGTTCGACTTGCATCTTATTTTGCTGAAGGTGCTATAAATGCTGCAAAGAAAAGgtgtaaaaacttatcattaattttagaagatattttttcaagtattcacattatgtatgcagttcaagtgattgagatgatttatag
upper sequence: LOC_Os03g17920.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv13s0019g04000.t01 (Vitis vinifera), 5'ss of exon 7
GTTTACTGCTTTGTGCAAAAACAAAGCTTGCCAAAGCTCAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaactactctttttcataattcgaaaaaaaatt--cttgct--attttt--tcatcttgtttaagatatttatag--------------------
| || | || |||||||| ||||||||||||||| ||| |||||||| |||||||| || || | || | || | ||||| || || ||||| ||| | || |||||| | | | | ||| || | |||||| |
GAATATTACTCTGTGCAAAGACAAAGCTTGCCAAAACTCGCCTTGCAGCATATTTTGCAGATGGAACATCAGTTGTAGGGGGCAACAGgttaggtgatataattgttcatgatttcatcctctgttttcttgcttgaataatggttttctcattaatcatatttgaggtgaaagttgaaatcaattaaMapped 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|33799285|gb|CF325499.1|CF325499EST: CAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAG GGATGAAACAGATATTTGCAAAGCGCGGAAAATTTCAAAGTTCTATCGAGC
genomic: CAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaact ... atatttatagGGATGAAACAGATATTTGCAAAGCGCGGAAAATTTCAAAGTTCTATCGAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTACTGCTTTGTGCAAAAACAAAGCTTGCCAAAGCTCAGCTTGCAGCTTATTTTGCTGAAGGCGCTACAAACGCTGGAAAGAGCAGgtataaaactactctttttcataattcgaaaaaaaattcttgctattttttcatcttgtttaagatatttatag
- - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG