Sequence
atgc intronic sequence ATGC exonic sequenceGATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttggattctgatttatcgtactgtgttgtggtattgatgtgtgactactgatctttaagtttttttatgtatag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50500.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 3
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttggattctgatttatcg----tactgtgttgtggtattgatg-tgtgactactgatctttaagtttttttatgtatag--
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CATATTAACACCAACCCATCTAGCTATTGTGATGGAATATGCTGCTGGTGGAGAGCTTTTTGAACGTATATGCAAGGCAGGGCGCTTCATTGAGGATGAGgttcttgattcaacccattgggttttttcttttctagtttttgtgctatttccatggtttcttgacactggttgcttctgcag
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S116_98V6.1 (Physcomitrella patens), 5'ss of exon 3
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgt-ttggattc-tgatttatcgtactgtgt-tgtggtattgatg-tgtgactactgatctttaagtttttttatgtatag--------
|| ||||| || |||| ||||| ||||| ||||||||||||||||||||||| || | |||||| |||||||| || | ||||| |||||||||||||| ||||| || | |||| ||| || || | ||| | | | | | | | || ||| | | |
CATGTTGACTCCAACCCACTTGGCCATTGTGATGGAATATGCTGCTGGTGGAGAGCTGTTTGAGCGAATTTGTAAAGCAGTCCGGTTCAGTGAAGATGAGgtattggaatcatcattttgttgactctgcctgaattcttggttctctttgtgcaaggtataacacttgcttaccttttgtgttgcag
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S218_59V6.1 (Physcomitrella patens), 5'ss of exon 3
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttg----gattctgatttatcgtactgtgttgtggt-attgatgtgtgactactgatctttaagtttttttatgtatag-----------------------------------------------
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CATGCTGACTCCAACCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTTTGAGCGAATCTGTAACGCAGGCCGCTTCAGTGAAGATGAGgtctgttttatttttgttttgtttttattttttgtttttgtttttatttgattgtttgtgtcaatgcgtagtt-tgtgaagattgatcaaatgtttttcttacagagatatgatatgttgtgttgcag
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S113_72V6.1 (Physcomitrella patens), 5'ss of exon 3
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttggattctgatttatcgtactgtgttgtggtattgatgtgtgactactgatcttta-agtttttttatgtatag----------------------
|| ||||| || |||||||||| ||||| ||||||||||| || |||||||| || | |||||| ||||||||||| || ||||| || ||||||||||| | | | | ||| ||| | | | || | | | | | | || ||| || |
CATGTTGACCCCGACCCATTTGGCCATTGTGATGGAATATGCGGCGGGTGGAGAGCTGTTTGAGCGAATTTGTAATGCTGGTCGGTTCAGCGAAGATGAGgtcggtaatattattcccagtattcgtgcatatttttcaaagacttcggatattttgtgcagagatttgatatgcgacgtgttgtgtattgtgtgacag
upper sequence: AT3G50500.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S240_91V6.1 (Physcomitrella patens), 5'ss of exon 3
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttggattctgatttatcgtactgtgttgtggtattgatgtgtgactactgatctttaagtttttttatgtatag----------------------------------------------------------------
| ||||| || | ||||| || || || ||||| |||||||||||||||||||| | ||||| ||||||||||| || ||||| |||||||||||||| | | || | | || | |||| | | || | || | | | | |||| ||| ||||| |||
TCTGTTGACACCAACTCATTTAGCCATCGTGATGGAGTATGCTGCTGGTGGAGAACTGTTCGAGCGAATTTGTAATGCAGGTCGGTTCAGTGAAGATGAGgt--gagtacttaagtgctgtgc-gtgt-aagtttctgctctgcg--catttttttttatatttatttatttatcttctcatcgttaacttttgtttctattcttaatgaaaggtttatcttctttttcctctgttatagMapped 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|164035085|gb|ES151173.1|ES151173EST: GGACGGTTTAGTGAAGATGAG GCTCGGTTCTTCTTTCAGCAGCTTATATCTGGAGTTAGCTATTGTCATGCA
genomic: GGACGGTTTAGTGAAGATGAGgtttggattc ... ttatgtatagGCTCGGTTCTTCTTTCAGCAGCTTATATCTGGAGTTAGCTATTGTCATGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTTTGACGCCTTCCCATTTGGCTATTGTTATGGAATATGCTGCTGGTGGAGAACTTTATGAGCGGATTTGTAATGCCGGACGGTTTAGTGAAGATGAGgtttggattctgatttatcgtactgtgttgtggtattgatgtgtgactactgatctttaagtttttttatgtatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG