Sequence
atgc intronic sequence ATGC exonic sequenceTCTCGTGGGATTGATCACCTTGTTATTCCTACAAGAGATTATATGTTTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATAgtaagtgagcaatagattagcccaatgtgaaacttttaactagccatttaattagttgatcatcctagaattagtggatgacttgttgaccattcaggttttctattgtcaacctcttttttaaatttaaatatgacatctctgaatatttcttattag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g05870.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g05870.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G863550_T01 (Zea mays), 5'ss of exon 3
TCTCGTGGGATTGATCACCTTGTTATTCCTACAAGAGATTATATGTTTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATAgtaagtgagcaatagattag--cccaatgtgaaacttttaactagccatttaattagttgatcatcctagaattagtggatgacttgttgaccattcaggttttctattgtcaacctcttttttaaatttaaatatgacatctctgaatatttcttattag
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TCACGTGGGATCGATCACCTTGTTATTCCTACAAGAGATTATATGTTTGCTCCTTCACTTGTGGATATTAATCAAGCTACTGATTTCATTCATAgtaagtgagccgcacattatgtctcactagttgagtgctcatgcattgctacggtaaacacttgtgtatgcatga-tgattcggttaatg-ctatacaaaat-----------------------------------------------------------
upper sequence: LOC_Os06g05870.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv11s0016g02890.t01 (Vitis vinifera), 5'ss of exon 4
TCTCGTGGGATTGATCACCTTGTTATTCCTACAAGAGATTATATGTTTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATAgtaagtgagcaatagattagcccaatgtgaaacttttaactagccatttaattagttgatcatcctagaattagtggatgacttgttgaccattcaggttttctattgtcaacctcttttttaaatttaaatatgacatctctgaatatttcttattag
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GCTCATGAGATAGACCACCTGGTAATTCCCACAAGAGATTACCTTTTTGCTCCTTCATTTGTGGATATTAGCCGTGCTGTAGATTTCATTCATAgtgagcaattc-ttctttgactttacatctgccagttctgtgattcttagat---gccatggtgtgtagttgagatgaaagtttcttttctttttgggttttcccttctggggaacag-----------------------------------------Mapped 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|58693134|gb|CK081821.1|CK081821EST: GTGTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATA GAAATGCATCTTGTGGGAGGATGACATACATCCATTGCAAAGCTGGGAGGG
genomic: GTTTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATAgtaagtgagc ... ttcttattagGAAATGCATCTTGTGGGAGGATGACATACATCCATTGCAAAGCTGGAAGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTCGTGGGATTGATCACCTTGTTATTCCTACAAGAGATTATATGTTTGCTCCCTCACTTGTGGATATTAGTCGAGCTGTTGATTTCATACATAgtaagtgagcaatagattagcccaatgtgaaacttttaactagccatttaattagttgatcatcctagaattagtggatgacttgttgaccattcaggttttctattgtcaacctcttttttaaatttaaatatgacatctctgaatatttcttattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT