Sequence
atgc intronic sequence ATGC exonic sequencegtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17430.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G31440.1 (Glycine max), 3'ss of exon 8
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttt--tttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
| ||| || |||| ||| ||| ||||| | || || | | | ||| ||| || | || ||| | |||| | |||| |||||||||||||||| || |||||||||||||| |||||||| || | |||||||| ||||||||||||||||||
---------------taaattatataattaatatcatgtgcacccattgaaaatttgaaactgaaatgggaa--gacttgacatataatttatatgatttaaatgatat------------gaatcca---gGCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCA
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G47980.1 (Glycine max), 3'ss of exon 9
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcct--ttaaaatggttcca--aaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG-
|| | || ||||||| | | |||| |||| | |||| | | || ||| |||| || | ||| | || ||| || | || || || ||||||||||| |||||||| ||||| |||||||| || || ||||| || ||||||||||||||||||
------------------------------attggacgggaaatgcaaggttttgatatg-atataaaaatta----ataatattgatcatgtaaactaaatagttttttgttatttgaattatttgattgcagaCACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAG
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------gtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataat-aattgtcatacaatactat-taatctaatctaattaatatttcctttaaaatggt-tccaaaagGCATCACCAA---CATGGAAGGTGGCAAGC--TAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG-------
| | | | | |||| | ||| | | ||||| | | | | || || | ||| | || | | | | || | | || | | | || | |||| ||| || |||| ||| | || || | | | | || | || | | || || | | | || | | || | | | |
gcatgggagatggcaggcaaggattggaagagtcgcaggcaacaaagatctttacttggga-actttcagtgagtatatctatacttcaatatccccatcttcaaaaatgacaaagacctttgtcatggattgttgttcctttttcttttttgcagGCACCCAAGAGGAAGCAGCAGAGGCCTATGACATTGCTGCCATTAAGTTTCGAGGATTGAATGCGGTGACCAACTTTGATATGAGTAGATATGATGTTAA
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 4
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
||| || | ||| ||| | || | |||| || || ||||||||||| || ||||| ||||||||| |||||||| |||| || || || ||||| || ||| | |||||||||
-----------------------------------------------------------------------------gtaatgctcatgatc-aattcatatattttttcacttcggtcttttttcccagGCATCACCAGCAGGGAAGATGGCAAGCTCGGATCGGACGAGTTGCGGGGAATAAAGATCTGTACCTCGGAACTTTCA
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 4
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
||| || | ||| ||| | || | |||| || || ||||||||||| || ||||| ||||||||| |||||||| |||| ||||| || ||||| || ||| | |||||||||
-----------------------------------------------------------------------------gtaatgctcatgatc-aattcatatattttttcacttcggtcttttttcccagGCATCACCAGCAAGGAAGATGGCAAGCTCGGATCGGACGAGTTGCCGGGAATAAAGATCTGTACCTCGGAACTTTCAMapped 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|116428762|gb|EG471354.1|EG471354EST: AAAAGTAGTGGTTTCTCTCGTGGTGCATCGATTTATCGAGGAGTAACAAG GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAA
genomic: AAAAGTAGTGGTTTCTCTCGTGGTGCATCGATTTATCGAGGAGTAACAAGgtacgtataa ... gttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
atactattaatctaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtataatccatctagatatggaacgaatacagtgtttcattattttttttgatgtatacataataattgtcatacaatactattaatctaatctaattaatatttcctttaaaatggttccaaaagGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG
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