Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGCTGCAGCTACAGCAACAGCAACAGCTAGGCCTCCTGCTACACTGGACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAGgtaaatacttgagcatgatccctactgcatttttcatttttgcaaagcaaaggcaaagttacagctgtgttctgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g05680.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g05680.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G030877_T02 (Zea mays), 5'ss of exon 4
---TGCTGCTGCAGCTACAGCAACAGCAACAGCTAGGCCTCCTGCTACACTGGACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAGgtaaatacttgagcatgatcccta-ctgcatttttcatttt---tgcaaagcaaaggcaaagttacagctgtgt-tctgtag---------------------------------------------------------------------------------------------------
|||| | || || || || || || || |||||||| ||| |||||||||||||||||||| | |||||||||||| ||||| || || |||||| | | ||| || | ||| || || || || | | | | ||| | | | | ||
TGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTC---TCGTCTTCACACGCCCAAGgtatggagtggagactggccgctagctacaacttgtatatagagtttattttatctcttctgttcacatcatatatatacagacgacagtaccagcaagcaagaacaaaagtttgcaactgctctccctttttttttctctcacccttttgcacgtcaggagtgctcgaatgtgacagcag
upper sequence: LOC_Os12g05680.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G030877_T01 (Zea mays), 5'ss of exon 4
---TGCTGCTGCAGCTACAGCAACAGCAACAGCTAGGCCTCCTGCTACACTGGACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAGgtaaatacttgagcatgatcccta-ctgcatttttcatttt---tgcaaagcaaaggcaaagttacagctgtgt-tctgtag-----------------------------------------------------------------------------
|||| | || || || || || || || |||||||| ||| |||||||||||||||||||| | |||||||||||| ||||| || || |||||| | | ||| || | ||| || || || || | | | | ||| | | | | ||
TGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTC---TCGTCTTCACACGCCCAAGgtatggagtggagactggccgctagctacaacttgtatatagagtttattttatctcttctgttcacatcatatatatacagacgacagtaccagcaagcaagaacaaaagtttgcaactgctctccctttttttttctctcacccttttgcacgtcagMapped 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|66914763|gb|CX101611.1|CX101611EST: ACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAG GATGGATGTTCAAATGTAACGGCAGACACAACGGACTCCGAGAGCAGCAGC
genomic: ACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAGgtaaatactt ... tgttctgtagGATGGATGTTCAAATGTAACGGCAGACACAACGGACTCCGAGAGCAGCAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGCTGCAGCTACAGCAACAGCAACAGCTAGGCCTCCTGCTACACTGGACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCTTCCAACACCGAAGgtaaatacttgagcatgatccctactgcatttttcatttttgcaaagcaaaggcaaagttacagctgtgttctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT