Sequence
atgc intronic sequence ATGC exonic sequenceCTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattccaattgcttcttcttccttttatccgttcttgaaaaagacagaag...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g72020.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g72020.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G039867_T01 (Zea mays), 5'ss of exon 1
CTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattccaattgc--ttcttcttccttttatccgttcttgaaaaagacagaag---
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GTGCTGGCACACGCACTGCGCCGCCGCCGTCGACCTCGCGCTCGACACGCTCGCCGCCGCACGCTCCTTCGGGGTCGAGGAGCTCGCGCTGCTCACCCAGgtaacca--taccaaactaaccaaccaattccagcatctccctcttccctca---cgactgcaattcttcacacgcttatttcttcgggtccgttgctgatgctc
upper sequence: LOC_Os01g72020.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G060723_T01 (Zea mays), 5'ss of exon 1
CTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattccaattgcttcttcttccttttatccgttcttgaaaaagacagaag---
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GTGCTGGCACACGCACTGCGCCGCCGCCGTCGACCTCGCGCTCGACACGCTCGCCGCCGCACGCTCCTTCGGCGTCGAGGAGCTCGCGCTCCTCACCCAGgtaaccaataattcgagcgtctccctcgctcgctccctctctccgacttcaattc---ttgatttgctggtttcttctccattgctggtggctcctgttcttc
upper sequence: LOC_Os01g72020.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA03G28440.1 (Glycine max), 5'ss of exon 1
CTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattccaattgcttcttcttccttttatccgttcttgaaaaagacagaag----
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CTGCTGGCACACGCATTGCACCTCCGCCGTCGATCTCGCCCTCGACACCCTCGCCGCCGCTAGATACTTTGGCGTCGAACCGCTCGCATTGCTCACTCAGgttttccacttttccatcttatttaca-ttcctc---tctctctctctctaattctaattctttcttgtttggtttcacgtttcacatgtaatttttcacatct
upper sequence: LOC_Os01g72020.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA19G31180.1 (Glycine max), 5'ss of exon 1
CTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattcca--attgcttcttcttccttttatccgttcttgaaaaagacagaag
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ATGCTGGCACACGCATTGCACCTCCGCCGTCGATCTCGCCCTCGACACCCTCGCCGCCGCTAGATACTTCGGGGTCGAACAGCTCGCATTACTCACTCAGgttttccactgttccagtcccgttcgaatgctaatgttttcgtgtttgattttcacataaatataattctcacaagttaattgttattgcttccacctct--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|7608717|gb|AU090498.1|AU090498EST: TCGCCGCCGCGCGCT-CTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGAAG
genomic: TCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCC---AGgtaatcaatc ... tgtgcaga
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCTGGCACACCCACTGCGCCGCCGCCGTCGACCTCGCCCTCGACACCCTCGCCGCCGCGCGCTCCTTCGGCGTCGAGGAGCTCGCCCTCCTCACCCAGgtaatcaatcacccactccactttccaattcctccaattctcccctcctccattccaattgcttcttcttccttttatccgttcttgaaaaagacagaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC