Sequence
atgc intronic sequence ATGC exonic sequencegtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01230.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G31350.1 (Glycine max), 3'ss of exon 2
--------------------gtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
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gaatttgtcttgttattattacatgtcaattg-taaaacattcctagaaaaactcttactattttgtttgtagtcaagaaagcaagtttcctttt---ttgcagTTACTGGCCTTCATGACATGGATGAGTTTGTACAATCCCAACTCATACTTGCA
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G07970.4 (Glycine max), 3'ss of exon 7
--------------------gtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
| || | | ||| | || || ||| | || | || || || || | ||| ||||||||||||| | |||||||||||||||||||| || ||||||||| |||| |||
tgtagaaaaactcttcttttccatgtcaattg-caaaacattcgtagaaaaactcttcttattttgtttgtagtcaagaaagcaagtttcctttt---ttgcagTTACTGGCCTTCATGACATGGATGAATTTGTACAATCCCAACTCTTACTTGCA
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G31380.1 (Glycine max), 3'ss of exon 7
--------------------gtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
| || | | |||| | | || ||| | || | || || || || | ||| ||||||||||||| | |||||||||||||| ||||| || |||||||||||||| ||
gaatttgtcttgttattattacatgtcaattg-taaaacattcctagaaaaactcttactattttgtttgtagtcaagaaagcaagtttcctttt---ttgcagTTACTGGCCTTCATGACATGGATGAGTTTGTACAATCCCAACTCATACTTCCA
upper sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 6
---------------------gtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
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gttaggcaacatatattgttttcaacttcatggtttatgcttctgtttctaccagcagtggtttgtttttcttaagttgatcagtttctgtga--tgatttgcagTTACCGGGCTTCATGATATGGATGAATTTGTCCAGTCCCAACTTATTCTTGCGMapped 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|164201021|gb|ES019084.1|ES019084EST: TGGTGCTCCAGATG TTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAG
genomic: TGGTGCTCCAGATGgtaaaacagt ... tggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
ttatgctataaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaacagtagataaagtgtctgtctcgccgttcaatatatacgttatgctataaaaaacgccttttacaatttggtttgcagTTACTGGTTTGCATGACATGGATGAATTTGTCCAGTCCCAACTCATACTAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA