Sequence
atgc intronic sequence ATGC exonic sequencegtaaagtttcaatcttttgctgtgtcatttcaaatataacatagaagttttgatgtttaataatttgttttgtgttgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G05170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 3
----------------gtaaagtttcaatcttttgctgtgtcatttcaaatataacatagaagttttgatgtttaataatttgttttgtgttgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
| | | ||| | | | ||| || | ||| |||| || || | | || || || |||||||| ||| | ||||||| |||||||||||| || ||||| |||||| || |||||| ||| ||| || ||||||||| | |||||||||||
ttctagaagtgcttcgggataaactcacccaaaaaggcccttggtcttgttattttttattattttgcatgtcaaac---ttatgcgagagtattgaatgtagAACATTGGACAAGGCTATTTCAAACTTAGAGATGGAATTGGCTGCTGCAAGGGCAACTCAGGAGTCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA
upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G46230.1 (Glycine max), 3'ss of exon 3
-gtaaagtttcaatcttttgctgtgtcatttcaaatataacatagaagttttgatgtttaataatttgttttgtgt---------------tgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
|| | | | | | | | | || | | || || | || |||| || | | || ||| | || ||| || |||||||| ||||| ||||| | |||||||||||| || ||||| || ||| | |||||||||| ||| || ||||||||| | |||||||||||
cctagaagtgc---ttccggataaacttatccgaacaagccctaagtcttgttatttttattattattttgcatgtcaaacttatgggaggtattgactgtagAACATTGGACAAGACTATTTCGAACTTAGAGATGGAATTGGCTGCTGCTAGGGTAACTCAGGAATCTCTACGAAGTGGTGCTCCTATTTCAGATGATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataacatagaagttttgatgtttaataatttgttttgtgttgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
aagttttgatgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagtttcaatcttttgctgtgtcatttcaaatataacatagaagttttgatgtttaataatttgttttgtgttgttacctgcagGACATTGGATAAGACCATTTCAAGCTTAGAGATGGAGTTAGCTGCAGCAAGGTCAGTTCAGGAATCTTTACAAAACGGTGCTCCTTTATCAGATGATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG