Sequence
atgc intronic sequence ATGC exonic sequencegtaatatcatatgtgatgcttaattgcttagacattactttactctactctttttggaagtagaattttttttcttatctttgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15980.2 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 18
-------------------------------gtaatatcatatgtgatgcttaattgcttagacatt--actttactctactctttttggaagtagaattttttttcttatctt------------tgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
| | | || ||||| || | ||| | || | || || |||||| ||| |||| | | |||| | | | | ||| || ||||| |||| ||||||||||| |||||||||||||||| ||||| ||| | ||||| | || |||
gtatgttcatgcaatatatctacaaggagatattgtttaatttgtgaaaattgttaacttgggtatccaatattcttcatttcttttcatcagtttgatttgtcattttatatcacaaataatatacctcctttttctttgcagAGTATTGCAATAGAATTACAGAGCGAGCCTAAATGGAAGCAGTTGGGAGAATTAACTATGTCTACTGGAAAG
upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 7
------------------------------------------gtaatatcata--tgtgatgcttaattgcttagacat-tactttactctactctttttggaagtagaattttttttcttatctttgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
| ||| ||||| | || | |||||| | | | || ||| | ||| | | || || | || || | | || | | ||| ||| ||| |||||| ||||| ||||| ||||| ||||||||||| || ||||| ||||||||||| | || |||
gtaagttcatatgttcctgcaaggatatattatttgactcgtgaaatttcataactctgctatttaattttctgcatttctaatttgcactagtttgatttgagttt--atattgtgagtaatgctcatcttct---tttgcagGGTATTGCTTCTGAAGTGCAGAGTGAGTCCAAATGGAAGCAATTGGGAGAATTAGCCATGTCTACTGGAAAG
upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 18
---------------------------------------gtaatatcatatgtgatgcttaattgcttagaca---ttactttactctactctttttggaagtagaattttttttcttatc-----tttgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
| | | || | | | || | | | | | || |||||||| | || ||| |||| | | | ||| | |||| ||||||| ||| |||||||||||| || | |||||||||||||| ||||| ||||| |||||| || |||
gtaagaatttttatttatctttagttaggtgtataaaccttcaattggcatttaacacctatgtaagtgagtgagttcatcaaaatcaactcttttcttataattgtttgtttccattatgaaagatgtttcttctcttcttgcagGAAATAGCTTCAGAAGTACAGAGTGAAACCAAATGGAAGCAGTTGGGAGAATTAGCTATGTCCAATGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctactctttttggaagtagaattttttttcttatctttgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
ttttttttcttatctt CT-rich tract
tagaattttttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatcatatgtgatgcttaattgcttagacattactttactctactctttttggaagtagaattttttttcttatctttgttttccatgcttgtagGAAATTGCTGAAGAAGTACAGAGCGAGTCTAAATGGAAGCAGTTAGGAGAGTTAGCCATGTCCTCGGGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA