Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGTTGCATCAATCCCAGGATTTTTCTTTTGCATATGGTATGCTGCGAAGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAGgtatgcttttgtgttattttgagatataaggttaatatgcattattgaaataactatggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaaacctacttgattctctttatcttacag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g02530.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA04G08510.1 (Glycine max), 5'ss of exon 6
AGTTGTTGCATCAATCCCAGGATTTTTCTTTTGCATATGGTATGCTGCGAAGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAGgtatgct-tttgtgttattttgagatataaggttaatatgcattattgaaataacta-tggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaaacctacttgattctctttatcttacag
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GGTCGTTGCTGGAATCCCTGGGACATTTTTTTGTGCCTGGTATGCTTTGCAGAAGCATTGGCTAGCAAATAATATATTGGGTCTTGCTTTCTGTATTCAGgtttgttgcttttcctatatataaatgttatttttttttgt-caattgagccaatcaattgattatgttttttatactaaatttttggtatccatttccat------------------------------------------
upper sequence: LOC_Os02g02530.3 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 5'ss of exon 6
AGTTGTTGCATCAATCCCAGGATTTTTCTTTTGCATATGGTATGCTGCGAAGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAGgtatg-cttttgtgttattttgagatataaggttaatatgcattattgaaataactatggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaaacctacttgattctctttatcttacag
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GATCGTTGCAGCAATACCAGGGACCTTTTTCTGTGCATGGTATGCTTCCCAGAAGCATTGGCTAGCCAACAATATATTGGGCCTCGCTTTCTGCATTCAGgtttggcagctgtatt-tcatcagaaccattgttacattggatgtctccatttgctagcat---gaacctattcatattagttttgggttactt---atttttacca-----------------------------------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|58684751|gb|CK073438.1|CK073438EST: AGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAG GGAATTGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG
genomic: AGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAGgtatgctttt ... tatcttacagGGAATTGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGTTGCATCAATCCCAGGATTTTTCTTTTGCATATGGTATGCTGCGAAGAAGCATTGGCTAGCAAACAATGTTTTGGGGATTTCTTTCTGCATTCAGgtatgcttttgtgttattttgagatataaggttaatatgcattattgaaataactatggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaaacctacttgattctctttatcttacag
- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC