Sequence
atgc intronic sequence ATGC exonic sequenceTGAGTTTGGTGGTGGACATAGGAGATTTGGTATTACTAGGGTTCATATGGAAGAAGATGCTGGCAAGTTACTTCATTCAGACACAGGAGATTACTCTCAGgttcatatggaatttatgacacgtttcagtttggttttatcagattcttgtaagggttttaggtttcagatgcaagatgtttgtgtttcttatgtgttagttggttactctaatggtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G48520.3 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G48520.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os11g34210.1 (Oryza sativa), 5'ss of exon 2
TGAGTTTGGTGGTGGACATAGGAGATTTGGTATTACTAGGGTTCATATGGAAGAAGATGCTGGCAAGTTACTTCATTCAGACACAGGAGATTACTCTCAGgttcatat-ggaatttatgacacgtttcagtttggttttatcagattcttgtaagggttttaggtttcagatgcaagatgtttgtgtttcttatgtgttagttggttactctaatggtgcag
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GGAGTTCGGCGGTGGGCATAGGAGATTTGGGGTCACAAGGGTGCATATGGAAGAAGATGCTGGCAAGCTGCTTCACTCTGAATCCGGGAGTTACTCTCAGgttttccttgctgtccctgtcttgaataatatctatggaatctgtactctgttaagttgtcatgctattctgatgtgctgcataacatgactctgaacca----------------------
upper sequence: AT1G48520.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G091560_T01 (Zea mays), 5'ss of exon 1
TGAGTTTGGTGGTGGACATAGGAGATTTGGTATTACTAGGGTTCATATGGAAGAAGATGCTGGCAAGTTACTTCATTCAGACACAGGAGATTACTCTCAGgttcatatggaatttatgacacgtttcagtttggttttatcagattcttgtaagg-gttttaggtttcagatgcaagatgtttgtgtttcttatgtgttagttggttactctaatggtgcag
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GGAGTTTGGTGGTGGGCATAGGAAATTTGGGGTCACAAGGGTTCACATGGAAGAAGATGCTGGCAAGCTGCTTCATTCTGAATCCAGCAGCTACTCTCAGgtcttccttg--tctacta-atgatt--gcttaatttctgtgtactactgtaagatattgtgatattcggatctgcttgtcatgtctttctggcataacagtttc-----------------
upper sequence: AT1G48520.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv05s0049g02140.t01 (Vitis vinifera), 5'ss of exon 2
TGAGTTTGGTGGTGGACATAGGAGATTTGGTATTACTAGGGTTCATATGGAAGAAGATGCTGGCAAGTTACTTCATTCAGACACAGGAGATTACTCTCAGgttcatatggaatttatg-acacgtttcagtttggttttatcagattcttgtaagggttttagg-----tttcagatgcaagatgtttgtgtttcttatgtgttagttggttactctaatggtgcag
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------------------------GTTTGGCATTACCAGGGTCCATATGGAAGAGGATGCTGGGAAGCTGCTTCATTCAGGAAACGGGAGTTACTCACAGGAAATTACTTTTTCCCTGTACTCTgtgttgttcaatactgttct-ctcttgctgtggcttcaatcaatttcttcagttcatggtgttgctcttttctgtagtataatcatgtttgcgtgcgagat--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|164088997|gb|ES115814.1|ES115814EST: TTCATTCAGACACAGGAGATTACTCTCAG GTAGATTTGAATAGAGCAGGTGTTCCTTTACTTGAGATTGTTTCTGAACCT
genomic: TTCATTCAGACACAGGAGATTACTCTCAGgttcatatgg ... aatggtgcagGTAGATTTGAATAGAGCAGGTGTTCCTTTACTTGAGATTGTTTCTGAACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGTTTGGTGGTGGACATAGGAGATTTGGTATTACTAGGGTTCATATGGAAGAAGATGCTGGCAAGTTACTTCATTCAGACACAGGAGATTACTCTCAGgttcatatggaatttatgacacgtttcagtttggttttatcagattcttgtaagggttttaggtttcagatgcaagatgtttgtgtttcttatgtgttagttggttactctaatggtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT