Sequence
atgc intronic sequence ATGC exonic sequenceAATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G63490.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G63490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G01470.1 (Glycine max), 5'ss of exon 2
AATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
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AATCTCGAAGAAACACATGTTTCCAAGGTTATGACAAGGAATCCAGTATTTGTCCTTTCTGACGCTCTTGCTGTTGAAGCCCTCCAAAAGATGGTGCAAGgttggt---attactcggagataggcacatgctaatttctatttctgtatggtgcca----ttggaataagtacaaagatcatttatgttttcag---
upper sequence: AT5G63490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G38140.1 (Glycine max), 5'ss of exon 3
AATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
||| |||| ||||||||||| || ||||||||||| | ||| ||| | ||||| || || || || | |||||| ||||| |||||||||||||| ||||||| || ||| | | | | || ||| | | | ||| | | || | | | | | | | | |
AATCTCGAAGAAACACCTGTTTCCAAGGTTATGACAAGGAATCCAGTATTTGTCCTTTCTGATACTCGTGCTGTGGAAGCCCTCCAAAAGATGGTGCAAGgttggt---attacacggagataggcacatgctaattactatttcggtacggtgcc-----ctttgaataaatacaaagatgattatgttttcag---
upper sequence: AT5G63490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA04G37370.3 (Glycine max), 5'ss of exon 4
AATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttg--atgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
||| | || || ||||| || || || || ||||| | ||| || | |||||||| || ||||| ||||||| ||||| |||||||||||||| ||||||| || | ||| | || | ||||| | ||| | || |||| || | || | | || || | | || |
AATCTTGAAGAGACACCAGTTTCCAAAGTCATGACTAGGAATCCGGTATTTGTTCTTTCTGAAACTCTTGCTGCAGAAGCCCTCCAAAAGATGGTGCAAGgttggt---agtgtatatagagaaacacaacttttcaagttagttacttttctgtatcctgccttttgaata---catggctgatatatgttgacag---
upper sequence: AT5G63490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv17s0000g01200.t01 (Vitis vinifera), 5'ss of exon 4
AATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttgatgtttatctgat-tgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
||| | ||||||||||| || || || |||||||| | ||||||||| |||||||| || || || |||||||| ||||| || ||||||||||| ||||||| || || | || | | |||| | | ||| | |||| | |||| | | || | || | | || | | |||||
AATCTTGAGGAAACACCAGTCTCCAAAGTTATGACAAGGAACCCAATTTTTGTTCTTTCTGATACTCTTGCTGTGGAAGCCCTGCAAAAGATGGTGCAAGgtt--gctgataacctgaaaaccatgtttactt--tttccatccaacatgctat-tctacaac-ttgccaa--ctgaacactgtgctgattttttgcagMapped 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|19876521|gb|AU237352.1|AU237352EST: TGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTNCAAAAGATGGTCCAAG GAAAATTCAGACATTTGCCGGTTGTTGAAAATGGCGAAGTTATTGCTTTAT
genomic: TGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctca ... cctactgcagGAAAATTCAGACATTTGCCGGTTGTTGAAAATGGCGAAGTTATTGCTTTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATGTCGAGGAAACACCTGTATCTAAGGTTATGACGAAGAACCCAATGTTTGTTCTCTCAGAAACACTTGCTGTTGAAGCTCTCCAAAAGATGGTCCAAGgtttgtctcattgtttttaagctagagaaacttgatgtttatctgattgctgtgtctagatccttaatgaggctatatcttaaccttacctactgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG