Sequence
atgc intronic sequence ATGC exonic sequencegtaagaacctctttctcagagatttatttgtcttgaaaagtttctatctggtgacgaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G36160.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 12
----------------gtaagaacctctttctcagagatttatttgtcttgaaaagtttctatctgg--tgacgaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
|| | | | ||| || ||| | || | | || || | || | | || | |||||||| || || | |||||| ||| ||||||||||||| ||||||||||| || ||||| ||||||||||| |||
gtaagcaacttgttttttatattcttttctcttggacttttgctagtttcatatggtggaattcatgacctgcgcttcttccaattaatacagAAAGCTTCTGCTAGCAGTGCAGCTTTGGTTTCAGATTATGTTGGTTATCTTGAAAAGGGACAAATCCCTCCCAAG
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 12
-----------------gtaagaacctctttctcagagatttatttgtcttgaaaagtttctatctggtgac----gaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
|| | | | ||| || ||| ||| || | | | | || |||| | | |||| | |||||||| || | | |||||| ||| ||||||||||||| ||||| ||||| || ||||| ||||||||||| |||
gtaagcaaacttgttttttatatccttttctctttgacttttttttagtttcatatggtggaattca-tgacctgtgcttcttcctattaatgcagAAAGCTTCCACTAGCAGTGCAGCTTTGGTTTCAGATTATGTTGGCTATCTTGAAAAGGGACAAATCCCTCCCAAG
upper sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 13
------------------------------------------------gtaagaacctctttctcagagatttatttgtcttgaaaagtttctatctggtgacgaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
|| | | | || ||||| | | | || || | || ||| | | | |||| ||||||||||| || | |||||| || ||||||||||||| || |||||||| || ||||||||||||||||| |||
gtaagcacacatgttttacctgtggtttgggtttctaaaggttttatgttatggaaggcattttcagatact---ataatttaaataattcacttctatt----ttacactttatcacctcagAAAGCATCTGCTAGCAGTGCAGCAATGGTTTCAGATTATGTCGGTTATCTTGAAAAGGGGCAAATCCCTCCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttatttgtcttgaaaagtttctatctggtgacgaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
ttctatct CT-rich tract
aaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaacctctttctcagagatttatttgtcttgaaaagtttctatctggtgacgaaatgttctatctgtccagAAAGCATCAGCGACCAGTGCTGCTGTGGTTTCAGATTACGTTGGTTATCTGGAGAAGGGGCAAATCCCTCCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA