Sequence
atgc intronic sequence ATGC exonic sequencegttagtgaagtattttggatgcttatgccgctcacaattcagtcaatatggaagtataagagtccaacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25230.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 8
---gttagtgaagtattttggatgcttatgccgctcacaattcagtcaatatggaagtataagagtccaacacttgtttgtca----ttggct-ttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
||| | | | || | | | |||| || | | | ||||| | || || | ||| || |||||||| | |||||| ||||||||| |||| |||||||||||||||||| |||||||||| |||||||||||| | ||||||| || |||||| |
tattttaactgaatcatcacccggcccaatcaattttagtttcaaaagatcattgaatttctctatccaaaaattaattaataatttttgcctcttttagGAGAAGGAATCCTGGGACATGGACACGCCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G10730.1 (Glycine max), 3'ss of exon 8
--gttagtgaagtattttggatgcttatgccgctcac-aattcagtcaat--atggaagtataagagtc--caacacttgtttgtcattggct-ttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
||| | | | ||| | | | | ||| | | || ||| | | || | || | | ||| || |||||||| | ||| || ||||||||| |||| |||||||||||||||||| |||||||||| |||||||||||| | ||||||| || |||||| |
tatttaactgaatcatcaccctgccgaatcaatttttgagttccaaaagttcattgaattcctctacctataaataattaataatttttgcctcttttagGAGAAGGAGTCCTGGGACATGGACACACCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 8
--gttagtgaagtattttggatgcttatgc-cgctcacaattcag----tcaatatggaagtataagagtc--caacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
| | | |||| | ||| | | ||| | | | | | ||| ||| | | || | | ||| | || || |||| | ||| || ||||| |||||||||| ||||| ||||||||||| |||||||||| |||||||||||| |||||||| || || || |
acttcccttttttcgtttgcacacttgtccattttcatgctatggatgattattttggcagttttatctctagtaatcttaatctgttttctgccttc-agGAGAAGGAGTCCTGGGATTTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGTGTTGTTTAAAGCTGGTAAGCATGCAA
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
-----gttagtgaagtattttggatgcttatgccgctcacaatt-cagtcaatatggaagtataagag-tccaacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC-
||| ||| | | | || | ||| ||| | | | ||| ||| | | | | | ||| | || | | |||| | ||| || ||||| |||||||||| ||||| ||||||||||| |||||||||| ||||| |||||| | |||||||| | |||||| |
tactttttacatttgtactcttgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 3'ss of exon 8
gttagtgaagtattttggatgcttatgc-cgctcacaattcagtcaatatggaagtataagagt---ccaacacttgtttgtca--ttggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
|| || | | |||| | | || | | | | | ||| | | | | | | || |||| | ||| |||| | |||||| ||||| ||||||||||| ||||||||||| |||||| | ||||||||||||||||| ||| || || | || |||||| |
gtctgtaatatttttttcgtccaaatattctttttccacatgatatctatagtatttcataactaagttgacgtgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
upper sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
------gttagtgaagtattttggatgcttatgccgctcacaattcagtcaatatggaagtataagagtccaacac-ttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
|| | | | | || | | |||| || ||||| | | | | | || || | | ||| |||| | |||||| ||||| ||||||||||| ||||||||||| |||||| | ||||||||||||||||| ||| || || | || |||||| |
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggc-ctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagtcaatatggaagtataagagtccaacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
cttttt CT-rich tract
aagtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgaagtattttggatgcttatgccgctcacaattcagtcaatatggaagtataagagtccaacacttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG