Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcttgtttccttctttagatgtaatttactcatatatttgcactaaagttggcgttactttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G54670.3 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G18470.1 (Glycine max), 3'ss of exon 9
-----gtatgttcttgtttccttctt--tagatgtaatttactcatatat-ttgcacta-aagttggcgt-tact-ttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
|||| | || | | ||| | | || |||| | |||| | || | | || || | | | | ||||| ||| ||||||| ||||||| ||||| || || || | | ||||| | || ||||||||||| || || ||||||||||||||||||| ||| || | |||||||| |||||
atttattatgcttgtgatgcattcctggtgcatttaatacaatcatgcttgttagattgcaaattagtgaacattgttctatgtaatttgatttgc-------ttagTTGTAACTGTGGACGGAATTCTGTTGACAAAATCCGGCACAATGACTGGGGGCACTAGTGGTGGAATGGAAGCAAGGTCAAAACAGTGGGATGACAAGAA
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G04300.2 (Glycine max), 3'ss of exon 9
-----gtatgttcttgtttccttctt--tagatgtaatttactcata--tatttgcactaaagttggcgt-tact-ttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
|||| | || | | ||| | | || |||| | |||| | || | ||| || | | | | ||||| ||| ||||||| ||||||| ||||| || || || | | ||||| | || ||||||||||| || || ||||||||||||||||||| ||| || | |||||||| |||||
acttattatgcttgtgatgcattcctggtgcatttaatacaatcatgcttgttagattgaaaattagtgaacattgttctatgtaatttgatttgc-------ttagTTGTAACTGTGGACGGAATTCTGTTGACAAAATCTGGCACAATGACTGGGGGCACTAGTGGTGGAATGGAAGCAAGGTCAAAACAGTGGGATGACAAGAA
upper sequence: AT3G54670.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 3
--------gtatgttcttgtttccttctttagatgtaatttac-tcatatatttgcac----taaagttggcgttactttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
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gtgaattaatgtttatctacttcattttctttttgttgttggtgtcattcatgtggagcttatatattctgtatcattgctaatgaagagttttttgtgcatttaatagTTGTAACTGTCGATGGGATTCTACTCACAAAATCTGGCACAATGACTGGTGGTACCAGTGGTGGAATGGAAGCAAGATCAAAACAGTGGGATGATAAAAAMapped 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|164144038|gb|ES072341.1|ES072341EST: CGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAG TTGTGACTGTTGATGGTATATTAC
genomic: CGAACTTGAAGAAGCCAAGGTTCTTAGCTGGAGCGGAGAGAGATTTAAAGgtatgttctt ... ttatttctagTTGTGACTGTTGATGGTATATTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgcactaaagttggcgttactttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
tttctgttatttct CT-rich tract
ttatttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcttgtttccttctttagatgtaatttactcatatatttgcactaaagttggcgttactttctacataacttgatttctgttatttctagTTGTGACTGTTGATGGTATATTACTCACAAAGGCGGGAACAATGACTGGTGGTACAAGTGGTGGAATGGAAGCAAAGTCTAATAAATGGGATGATAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG