Sequence
atgc intronic sequence ATGC exonic sequencegtatctctcactttagtttcaacggtttttatcggtatatcttgaatgcggtaatcagaaacaagcccgttgcttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26120.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA19G30450.1 (Glycine max), 3'ss of exon 15
-------gtatctctcactttagtttcaacggtttttatcggtatatct-tgaatgcggtaatcagaaacaagcccg--ttgcttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
|| | | ||| || | | | ||| || || | || | || | ||| | ||| | | ||||||| ||| |||||||| || || ||||| | ||| || ||||||||||||||||||||||| |||| || ||| | |||||||| |||||||| |||
aagtaaagtgttt-tcatttcaaatgttatggtggttggtaaatcatgtacagttgttcctcttgatggtaaactaagattgtgtcaatttctgtcgttagGTGGAACCCGGATGCAATTGTATTCAACTCCTTTCAGCTCTATGGAACTCCTAGCTATTGGGTGCAACTATTTTTCTCAGAGTCAAGTGGAGCAACACTT
upper sequence: AT5G26120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA03G27460.2 (Glycine max), 3'ss of exon 14
------gtatctctcactttagtttcaacggtttttatcggtatatcttgaatg--cggtaatcagaaacaagcc--cgttgcttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
| | | | | || | | || ||| ||| |||| | |||| | | | || | ||| | ||| | | ||||||| ||| |||||||| || || ||||| | ||| || ||||||||||||||||||||||| ||| || ||| | ||||| || |||||||| |||
agtaaaatgttttcaattctaatgttaa-ggtggttactaaaatatgtagaattgttcctcctgatggctaaactaatattgtgtcaatttctgtcattagGTGGAACCCAGATGCAATTGTATTCAACTCCTTTCAGCTCTATGGAACTCCTAGCTATTGGGTGCAAGTATTTTTCTCAGAGTCGAGTGGAGCAACACTT
upper sequence: AT5G26120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA19G30470.1 (Glycine max), 3'ss of exon 16
-----------------------------------------------------------------------------gtatctctcactttagtttcaacggttttta--tcggtatatct-----tgaatgcggtaatcagaaacaagcccgttgc---------ttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
||| | ||| | |||| | | | | ||| || | | || | | | | | ||| |||| | | || ||||||| || |||||||| |||||||| || |||| ||||||||||||||||||||||||| || | || | ||||||| |||||||| ||
gtatgcacttttaccataaaatttctatcatctctccctcttttcccataaatctatagaataagaatgctacatctgtaaatggtactcaaatttccaaaatgccaagataggtggatttataaattaagacaattgctcatgatggccacattgagatgtatcattttttctctcttcatagGTGGAACCGGGATGCAATTGTTTTTAATTCCAATCATGTATATGGAACTCCTAGCTATTGGGTGCAGTTTATGTTTAGAGAGTCAAATGGAGCAACATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatcttgaatgcggtaatcagaaacaagcccgttgcttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
cttttgttttgttttt CT-rich tract
ttttgttttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctctcactttagtttcaacggtttttatcggtatatcttgaatgcggtaatcagaaacaagcccgttgcttttgttttgtttttcagGTGGATCCCTGATGCAATAGTTTTTAACTCGTCTCATCTATATGGAACTCCTAGCTATTGGGTCCAACACTTCTTCACCGAGTCAAGCGGAGCAACTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA