Sequence
atgc intronic sequence ATGC exonic sequenceATTACTATCGTCTTGTTCGACGCATGAAGAAACTTCTTGGTCCTGAGTTCTCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTGgtaacggaatgaatgtctgcatgcaaattaatctgattagatgtggtccctactgcttgatattatttatataacatgattgcaaagggtagtgtttggc...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g56234.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G085427_T02 (Zea mays), 5'ss of exon 5
ATTACTATCGTCTTGTTCGACGCATGAAGAAACTTCTTGGTCCTGAGTTCTCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTGgtaacggaatgaatgtc-tgcatgcaaattaatctgattagatgtggtccctactgcttgatattatttatataacatgattgcaaagggtagtgtttggc---
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ACTATTATCGTCTTGTTCGGCGCATGAAGAAGCTACTGGGTCCTAGGTTCTCACTTGATGCAAAAAACTCCAAGGATACCATTGCTGCTATGCTTCGCTGgtaattgaatatattttatctctgtaaattg-cctgagaaaatatagttc--attg-ttgattttattcatgaaccataggaccagaaactagttgataggatt
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G152319_T01 (Zea mays), 5'ss of exon 5
ATTACTATCGTCTTGTTCGACGCATGAAGAAACTTCTTGGTCCTGAGTTCTCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTGgtaacggaatgaatgtctgcat--gcaaattaatctgattagatgtggtccctactgcttgatattatttatataacatgattgcaaagggtagtgtttggc--
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ACTATTATCGTCTTGTTCGACGCATGAAGAAGCTATTGGGTCCTAGGTTCTCACTTGATGCAAAAAACTCCAAGGATACCATTGCTGCTATGCTTCGCTGgtaattgaatatatctcgtcatctgttaattg-cttgataaagtatagttc--attg-ttgattttatttatacaccatagaagcaaaaactagctgttactttMapped 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|58666194|gb|CK054880.1|CK054880EST: TCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTG GTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAA
genomic: TCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTGgtaacggaat ... ttctatgcagGTGGTCTCTGCTTGAAAAATTTAGCTGCAGTGCATCAAAACTGCATCTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTACTATCGTCTTGTTCGACGCATGAAGAAACTTCTTGGTCCTGAGTTCTCACTTGATGCAAAAAATTCAAAGGACACTGTTGCTGCTATGCTCCGCTGgtaacggaatgaatgtctgcatgcaaattaatctgattagatgtggtccctactgcttgatattatttatataacatgattgcaaagggtagtgtttggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT