Sequence
atgc intronic sequence ATGC exonic sequence...cagtatattttcctttcattgtttattttccaaattaagttttaatgctactctcattatacagctttctccattttattgaactgtttcctgtatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
Basic information
species | Oryza sativa |
transcript | LOC_Os12g19304.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g19304.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G061732_T01 (Zea mays), 3'ss of exon 1
cagtatattttcctttcattgtttattttc--caaattaagttttaatgctactctcattatacagctttctccattttattgaactgtttcctg-tatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
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-catgtttttttcttctttttatgatttgcgctacatttggtcttagt-tgatttacaatctatgcttatcccttctgtaac-aattgtttgctgatatgcagGGTGGTAACTGTATGGTACATGACATGTTTGGCCATGAGGTTGTGGGGAAAATAAAGGAACAATATTGTGATGCATTTCTAACAGCACACTTTGAGGTCC
upper sequence: LOC_Os12g19304.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G142836_T01 (Zea mays), 3'ss of exon 3
cagtatattttcctttcattgtttatttt---ccaaattaagttttaatgctactctcattatacagctttctccattttattgaactgtttcctg-tatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
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--atatccttttttttctttttatgatttgcgctacatttggtcttggt-tgatttacaatct-ctgcttatcccttgtgtaacaattgtttgctgatatgcagAGTGGTAACTGTATGGTACATGACATGTTTGGCCATGAGGTTGTGGAGAAAATAAAGGAACAATATTGTGATGCATTTCTAACAGCACACTTTGAGGTCC
upper sequence: LOC_Os12g19304.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA17G13410.1 (Glycine max), 3'ss of exon 4
cagtatattttcctttcattgtttattttccaaattaagttttaatgctactctcattatacagctttctccattttattgaactgtttc---ctgtatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
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--atttatgtgttttatgacttttatctaagtaggctagtactagcaat-ctatggttctatattttatttcatgattatatatttttgcaacttgttgccagGATGGAACATGCATTGTTCACCATCTATTTGGCCATGAAGTTGTGGAGAAGATAAAAGAAATGTACTGTGATGCATTCCTTACTGCCCACCTTGAGGTACMapped 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|58688229|gb|CK076916.1|CK076916EST: ACAACAAAAAATCTATAAATGCCTTGTTGCCACGCCTACATTACTACCAG GATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAA
genomic: ACAACAAAAAATCTATAAATGCCTTGTTGCCACGCCTACATTACTACCAGgtttatgtgg ... ctgtatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctactctcattatacagctttctccattttattgaactgtttcctgtatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
ctgtttcct CT-rich tract
attttattgaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtatattttcctttcattgtttattttccaaattaagttttaatgctactctcattatacagctttctccattttattgaactgtttcctgtatgcagGATGGTAACTGTATTGTTCATGATATGTTTGGCCATGAAGTTGTGGACAAAATAAAGGAGCAGTATTGTGATGCATTCCTCACAGCACACTTTGAGGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG