Sequence
atgc intronic sequence ATGC exonic sequencegtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09160.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 4
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgca---atagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
| ||||| | | || | ||| ||| | | || || |||| || ||| || |||||| || || || || |||||||||||||| || || ||||| || || |||||||| ||||| ||||||||||||||||| || |||||||| |||||||
------------------------------------------------gtatggtgtaatctttatattcctttctaatcaggacttttta----actagcctgttttggttcc-ttaatacatttatagGTAGGGCCTCTTCGCTGCTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACGGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGC
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 4
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgca---atagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
| || || || | | || ||| ||| | || || |||| || ||| || |||||| || || || || || ||||||||||| || || ||||| || || |||||||| || || |||||||||||||||||||| |||||||| || ||||
----------------------------------------------gtacaatgtaatctttctattcctttctaatca--ggacttttt----cactagcctgttttggttcc-ttaatacatctatagGTAGGGCCTCTTCGCTGTTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACAGACGTGGGAGAATTTATTGTCCCAATACCACATGTCAAGC
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G39260.1 (Glycine max), 3'ss of exon 4
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
|| | || ||||| | | ||| |||| || | | || | || | | | || | ||| ||||| || |||| || || || || |||||||| ||||| || || || || || || || || || ||||||||||||||||||||||| || |||||||| || ||||
--------------------------gtatgatgcaatcaccttttg--cgctcatgctttctaat----aaagattgtttaaactt--agtagttttggtttgc----gttatgtttat-----agGTTGGGCCTCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCCAGATCAATAGGCGACACGGATGTGGGAGAATTTATTGTGCCAATACCACATGTAAAGC
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 3'ss of exon 4
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
|| | | || || | |||| ||| |||| | | | ||| | | || || || ||| | | | | | ||||| |||||||| || |||||||||||||| |||||||| || ||||| |||||||| || |||||||||||||| |||||||| |||||||| |||||||
---------------gtataacatatttgatgcccatacaactcaaagctgaaagaaattt-taat---tgattattcccttgtctt----gaatcttcatggg--tcaaatgtatatggtttgtagGTTGGCCCACTCCGCTGCTGGCCTGGTGGATTATGTCTCTCCAGGTCAATTGGTGACACAGATGTGGGAGAATTCATTGTCCCAATACCACATGTTAAGC
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ12414 (Selaginella moellendorffii), 3'ss of exon 4
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
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-------------------------------------------------------------gtgactt--aagctcttttgtgtttttctctgacaggactgaa---tgattgagct----ctatagGTTGGGCCATTGAGATGTTGGCCGGGAGGGCTTTGTCTTTCGAGGTCCATTGGTGACATGGACGTCGGGGAGTTTATTGTCCCTGTGCCATACGTGAAACMapped 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|164023217|gb|ES072583.1|ES072583EST: CTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAG GTCGGCCCACTACGATGCTGGCCTGGTGGTTT
genomic: CTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgatcat ... aatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
attttcaatgatatta 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTTATGTCTTTCGAGGTCCATTGGTGATACGGATGTGGGAGAATTTATTGTCCCTATACCACACGTTAAGC
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