Sequence
atgc intronic sequence ATGC exonic sequenceAGTCAAATCCTGGCTGGTGGCCGTGGATTGGGAACATTCAAAAGTGGACTGCAGGGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagttaatgtcagagacttacgaatatattgaacagcagcttgacaagtttctcccagtatgtgcttcagttgtttgttgcttcagatgataatgg...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g40830.3 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g40830.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G064695_T01 (Zea mays), 5'ss of exon 3
AGTCAAATCCTGGCTGGTGGCCGTGGATTGGGAACATTCAAAAGTGGACTGCAGGGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagt---taatgtcagagacttacgaatatattgaacagca---gcttgacaagtttctcccagtatgtgcttcagttgtttgttgcttcagatgataatgg
||||||||||| ||||||||||| || ||||||| |||||||| |||||||| |||||||| |||||||||||||| |||||||||||| | ||| ||| | || | || | | |||| ||| | | ||||| | | | | | | | ||| |||| | ||
AGTCAAATCCTTGCTGGTGGCCGAGGGCTGGGAACTTTCAAAAGCGGACTGCAAGGTGGTGTCCATATTGTTAAGGCTGAGGAAGCTGAATTGATTGCAAgtaagtgtgtattatatagcaagtacttgaattcattatgtatcgctggcttgctgtgacttgacgaaggaaaacaaactataatagtt-cttcctagaat-----
upper sequence: LOC_Os02g40830.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G094614_T01 (Zea mays), 5'ss of exon 3
AGTCAAATCCTGGCTGGTGGCCGTGGATTGGGAACATTCAAAAGTGGACTGCAGGGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagt---taatgtcagagacttacgaatatattgaacagca---gcttgacaagtttctcccagtatgtgcttcagttgtttgttgcttcagatgataatgg
||||||||||| ||||||||||| || ||||||| |||||||| ||| |||| ||||||| |||||||||||||| |||||||||||| | ||| ||| | || | || | | |||| ||| | ||||| | | | | | | ||| |||| | ||
AGTCAAATCCTTGCTGGTGGCCGAGGGCTGGGAACTTTCAAAAGCGGATTGCAAAGTGGTGTCCATATTGTTAAGGCTGAGGAAGCTGAATTGATTGCAAgtaagtgtgtattatatagcaagtacttgaattcattatgtattgctggcttgctgtgacttgacgaaggaaaacaaactataacagtt-cttcctagaat-----
upper sequence: LOC_Os02g40830.3 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv07s0005g03790.t01 (Vitis vinifera), 5'ss of exon 3
AGTCAAATCCTGGCTGGTGGCCGTGGATTGGGAACATTCAAAAGTGGACTGCAGGGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagttaatgtcagagacttacgaatatattgaacagcagcttgacaagtttctcccagtatgtgcttcagttgtttgttgcttcagatgataatgg-
|| ||||| || || ||||| || || |||||||||||||||||||| || ||||||| ||||| ||||||||| | || | | ||| || || |||| | | ||| | | | | || | || | | ||| | || ||| ||| | | || ||| ||| ||
AGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTCAAAAGTGGTCTTAAGGGTGGAGTTCACATTGTTAAGACTGACCAGGTTGAGGAGCTAGCTGgtaataaggattgtattttatatttcattttaacaccataaatttttttttttgtttccttagctttgtttcctttgaatctcttttatcatg-taaaggtMapped 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|88730444|gb|CI754057.1|CI754057EST: GGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAG CAAAAATGCTTGGCCAGATTCTGGTAACAAAACAAACTGGTCCACAGGGGA
genomic: GGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagtta ... tcctctgcagCAAAAATGCTTGGCCAGATTCTGGTAACAAAACAAACTGGTCCACAGGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTCAAATCCTGGCTGGTGGCCGTGGATTGGGAACATTCAAAAGTGGACTGCAGGGTGGTGTTCATATTGTTAAGGCAGAGGAAGCTGAAAGCCTCGCAGgtacgagttaatgtcagagacttacgaatatattgaacagcagcttgacaagtttctcccagtatgtgcttcagttgtttgttgcttcagatgataatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA