Sequence
atgc intronic sequence ATGC exonic sequence...gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20650.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 6
gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagt-tgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
| ||| |||| || | || | || | | ||| || | | || || | | | | ||||| || ||||||| |||||||||||||| |||| ||||| ||||| || | ||| ||||| ||||| |||||||||||||| |||||||| | || || |||||||
-gcagttagactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G17220.1 (Glycine max), 3'ss of exon 8
gtttttcccactggcatattgaa-gttgtagcgtggttgaaatatagttagt-tgtgtagttatggattctaaagttaccaagtcattgtttaactg-tgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
| ||| |||||| | || || || | | | | | ||| | | || | | | ||| | | | | |||| || || ||||||| |||||||||||||| ||| ||||| ||||| || | ||| ||||| ||||| ||||||||||||| |||||||| | || || ||||| |
-gcagttagactattgcattgaatacaattatgttctttccatcttgaaattgtatgttggtttgtactttctagt--ctgataaacttcttaaatgctgcagTTTGCATTGCATTACTCATGGTCTATAGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCACCCAGGAGGCATTTTCATTGGAACTA
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 3'ss of exon 6
---gtttttcccac-tggcatattgaagttgtagcgtggttgaaatatagttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
| | | || | |||| || || || | || || | | |||| || || || | | || | | | || | ||| || | || ||||||||||||||||||||||| ||||||||||||| |||||||| |||||||| ||||| ||||| ||||||||||||||||| |||| |||||||| |
tgaatcatgcaaacattagatatagattttcgaggcttcttcaagtttcattagatgaatatttgattaatttaga-tcatcacctgatta---aattttgcagTTTGCTATGCATTACTCATGGTCTACTGAGGCACGGGCACGACGTGCTTTGGCCAATGTATCAGCATTACTTCGTCCAGGAGGCATCTTCATCGGAACGA
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 3
gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGG-CAAATGT-TTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
| || | | |||| |||| | | | | || | || ||| | | || |||||||||||||||||||| |||||||||||| |||||||| ||||||| | ||||| |||||| ||||||||||||| ||| |||| || ||||
----------------------------------------gttcgcttgg--atagagttttggaagatgatgct-ccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT--Mapped 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|86084647|gb|DR380406.1|DR380406EST: TAGACAAGATTCTTGAAGAGGATGCCCCTTTTGATATCTGCAGTTGCCAG TTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTG
genomic: TAGACAAGATTCTTGAAGAGGATGCCCCTTTTGATATCTGCAGTTGCCAGgttttatatg ... aactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
attgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT