Sequence
atgc intronic sequence ATGC exonic sequenceAACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatataatatgctgacataaaccctttctttcttccaacaacttgaactataaccttagtactccttctctgctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22350.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22350.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g33230.1 (Oryza sativa), 5'ss of exon 8
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtata-taatatgctgacataaaccctttctttcttccaacaacttgaactataaccttagtactccttctctgctgcag-----------
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AACCTAACCCGCACATGGGGCATCTTGCATGGGCTGATGCTTTTGTTGTAACAGCTGATTCTATAAGTATGTTAAGTGAGGCTTGTAGCACAGGgtaagctgatattaaaattcacgtaatttccagcaagctcctaccttttttatgggtttgcatgacttgcttcacatcacacgtgtcacag
upper sequence: AT5G22350.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G39140.1 (Glycine max), 5'ss of exon 8
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatat--------aatatgctgaca--taaaccctttctttct----tccaacaacttgaactataaccttagtactcctt--ctctgctgcag-----
||||||| || | ||||||||||| ||||||| |||||| ||||| || |||||||||||||| || ||||||| |||||||| |||||||||||| | | ||| | || | || ||| || || || |||| || || || | | || |||
AACCAAACCCACATATGGGGCATCTGGCTTGGGCTGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCTTGCAGCACCGGgtatgtctgtcaaaagtatttctatgattagatttcctcactctgatctctaaatgatttaactggaaatttggtttttatagagtccactgtttttttt
upper sequence: AT5G22350.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G31170.1 (Glycine max), 5'ss of exon 8
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatat------aatatgctgacataaaccctttctttcttccaacaacttgaactataaccttagtactccttctctgctgcag-----------------
||||||| || | ||||||||||||||||||| ||||| ||||| || |||||||||||||| || ||||||| |||||||| ||||| |||||| | | || | || | |||| | | | ||| || || | ||| | || | ||
AACCAAACCCACAAATGGGGCATCTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCTTGCAGCACTGGgtatgtctgtcagaaatatttctatgattagattctccccactctgatctttaa--atgattttactgaaatttagtatttatagagtccactgatgcttct
upper sequence: AT5G22350.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G18750.1 (Glycine max), 5'ss of exon 8
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatataatatgctgacataaaccctttctttcttccaacaacttgaact----ataaccttagtactccttctctgctgcag---------------------
|| || | ||||||| ||| ||||||||| ||||| ||||| || |||||||||||||| || ||||||| ||||| || ||||| |||||| | | || || | || || | || || | | | |||| | | | | | |
GACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGGgtatgct-tgtatggaagtatttctattattagaatgattttatttaatttctctttatacaagtatttaatattagttataaaattattttgttctaccccag
upper sequence: AT5G22350.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv06s0080g00830.t01 (Vitis vinifera), 5'ss of exon 8
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatataatatgctgacataaaccctttctttcttccaacaacttgaactataaccttagtactccttctctgctgcag-------------------------------------------------------------------------
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AACCAAATCCACACATGGGACATCTAGCTTGGGCTGATGCTTTTGTTGTCACAGCAGATTCAGTGAGTATGATAAGTGAGGCTTGCAGCACAGGgtatgcttcagaagaattta---cccctatgattgatgataatttggagcatcttgat-gttctctttttctttttccttttaggatatgatacttgtttatattctcttattatattgcaatattagttatttcaatttttgttgctgtagMapped 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|116460255|gb|EG502847.1|EG502847EST: GTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGG GAAACCAGTGTACGTTGTTGGAGCCGATCACTGTAAATGGAAGATTGCAGA
genomic: GTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatataata ... tctgctgcagGAAACCAGTGTACGTTGTTGGAGCCGATCACTGTAAATGGAAGATTGCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGGgtatataatatgctgacataaaccctttctttcttccaacaacttgaactataaccttagtactccttctctgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT