Sequence
atgc intronic sequence ATGC exonic sequenceTGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccgacaaattttttatttgacttctttcaaaatccctggatctttaccct...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G59760.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G59760.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 4
TGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccga--caaattttttatttgacttctttcaaa-atccctggatctttaccct----------
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TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattatt-attcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttccattgggtgatag
upper sequence: AT1G59760.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 5'ss of exon 4
TGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccgacaaattttttatttgacttctttcaaaatccctggatctttaccct---
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TGACATTTTCAAGATGGTGAAAATGATTATTCAGCGTCAGTATGATCCCGTGATACTTTTCAGCTTCAGTAAAAGGGATTGCGAATTTCTTGCAATGCAGgtaaatctctctctctctctctctgagaaggaaaaaaaaaaaagaaatgggggtcgggttaactacctaggtttccacca---cctggagacagagccctgat
upper sequence: AT1G59760.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ21372 (Selaginella moellendorffii), 5'ss of exon 4
TGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccgacaaattttttatttgacttctttcaaaatccctggatctttaccct
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TGACATCTGGAAGATTGTGAAAATGATTATTGCACGGCAATATGATCCAGTGATAGTGTTCAGTTTTAGCAAGAGGGATTGCGAGCATCTTGCAATGCAGgtgattttctttctcctcg------ctgatgtgtttgtctaa--ccgttgcttgcag-------------------------------------------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|125018522|gb|EL090791.1|EL090791EST: TGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAG ATGTCTAAGATGGTTTTGAACAGCGAT
genomic: TGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcc ... tgttccacagATGTCTAAGATGGTTTTGAACAGCGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccgacaaattttttatttgacttctttcaaaatccctggatctttaccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttctttc