Sequence
atgc intronic sequence ATGC exonic sequenceATATGTGCCGTTCTCTATCCCGGTGATGCTACAGAAGAAGGAAAGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAGgtaataattaattttatttggaagcatggttactgtaagagaaacctatcacagtgcctcctatgtccacaccagtcttttgttgtgaattgttgttgtg...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g63270.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g63270.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G085577_T01 (Zea mays), 5'ss of exon 6
ATATGTGCCGTTCTCTATCCCGGTGATGCTACAGAAGAAGGAAAGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAGgtaat-----aattaattttatttggaagcatggttactgtaagagaaacctatcacagtgcctcctatgtc-cacaccagtcttttgttgtgaattgttgttgtg
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ATATGTGCCGTTCTTTATCCCGGTGATGCTACAGAAGAAGGAAAGCTTCTAAGGCTGAAGCAGCAGTTTTTCCTTTGCAGCGCATCACTTCAGgtagttaagcaatccatttcacttg--agcaaggttccaataaaaggatcgttgccaaacatatagaaaatcacaagtaaatacaatgttgtaattt--tcttg--
upper sequence: LOC_Os01g63270.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 5'ss of exon 6
ATATGTGCCGTTCTCTATCCCGGTGATGCTACAGAAGAAGGAAAGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAGgt-aataattaattttatttg-gaagcatggttactgtaa--gagaaacctatcacagtgcctcctatgtccacaccagtcttttgttgtgaattgttgttgtg
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ATTTGTGCTGTTCTATATCCTGGAGATGCTACAGAAAGTGGAAAGCTTTTGCGACTAAAGCAACAATTTTTCCTATGCAGTGCCTCACTTCAGgttggttccttctcttctttgtgatccgttattattatgtttatgatttctattgtttttctcaataggagtttgttgactttgcatcctacac-atcctc---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|58688682|gb|CK077369.1|CK077369EST: AGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAG GATANNNNNNNCAGGTTTAAAGAAAGGAAAGCTGACAGAGTTTCTGGGAAA
genomic: AGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAGgtaataatta ... ctatttgcagGATATTTTTTTCAGGTTTAAAGAAAGGAAAGCTGACAGAGTTTCTGGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATGTGCCGTTCTCTATCCCGGTGATGCTACAGAAGAAGGAAAGCTTCTCAGACTGAAGCAACAGTATTTCCTTTGCAGTGCATCGCTTCAGgtaataattaattttatttggaagcatggttactgtaagagaaacctatcacagtgcctcctatgtccacaccagtcttttgttgtgaattgttgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA