Sequence
atgc intronic sequence ATGC exonic sequencegtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21050.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 3
-----------------gtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgt-tgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
|||||| || | | | | | | | | || | | | || || | || | |||||||||||||||||||||||||||||| |||| |||||||| ||||| || || ||||||||||||||||| ||||| || ||||| |||||||||||||||
attcattactgttttttaatctttatttaaataaaactcgtgtgtgctagctataacttttttgggctagctaggaattacatggttaacttttgtgcagCAACATATATTACATAAATGATAATTTGGATAAGAGGACTTGGACTTATATCTTTGGAGCATGTTGTGCCACCACTGTATTTATCCCTTCCTTCCACAAC
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G03490.1 (Glycine max), 3'ss of exon 3
-----------------------gtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
| | | ||| ||| | || | | || | | | | |||| | ||| | | ||||| |||| |||||||||||||||||||||||| || |||||||||||||| ||||| ||||| |||||||| || ||||| ||||| ||||||||||||||||| ||||||
aagacaagaaaccaacatcacatgcatgtcccataataatcttacctcctgcaacaattcattggggtgtgagtg--tgaatattgttttaatgt--tgtt-cagCAACATATATTACATAAATGACAACCTGGACAAGAGGACTTGGACTTACATCTTTGGAGCTTGCTGTGCCACCACTGTCTTTATTCCTTCCTTTCACAAC
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G00690.1 (Glycine max), 3'ss of exon 3
-----------------gtactttatataccaattctttcttcaggaaaatgaga---ctaa-tgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
|| ||| | | || ||| || | || | |||| | | ||| || ||||| | | | | || |||||||||||||||||||||||||||||| |||| ||||||| ||||| ||||| ||||||||||| ||||| ||||| || ||||| |||||||||||||||
tttctaaatattttgctgttttttttttgttttttttttaaatagaactctgtgtgctctaacttagctaggaattacatggttattaact---tttgtgcagCAACATATATTACATAAATGATAATTTGGATAAGAGGAGTTGGACTTACATCTTTGGAGCATGCTGTGCCACCACTGTATTTATCCCTTCCTTCCACAAC
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 3
-----------------------gtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
| | | ||| || | || | | || | | | | |||| | ||| | | ||||| |||| |||||||||||||||||||||||| || |||||||||||||| ||||| ||||| || ||||| || ||||| ||||| ||||||||||||||||| ||||||
aagacaaggaaccaacatcacatgcatgtcccataataaccttacctgctgaaacaattcattggggtgtgagtg--tgaattttgttttaatgt--tgtt-cagCAACATATATTACATAAATGACAACCTGGACAAGAGGACTTGGACTTACATCTTCGGAGCTTGCTGTGCCACCACTGTCTTTATTCCTTCCTTTCACAAC
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------------------------------------------gtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
|| || | | ||||||| | | || | | ||| | | | | | | | | |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| || ||||| || ||||| |||||||||||||||||||| |||||||||
gcatctccctctctccctccctatcctcctcctactactactctctctctctctctctctctttctctgtctcttgttttttcttcacccaccacatttttttttcctttctttacaataaacaaagatctgaggca-ttttctgcaactgggcatgtcgtttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACTTACATCTTCGGAGCCTGCTGTGCCACCACAGTCTTTATTCCTTCATTCCACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
tttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttatataccaattctttcttcaggaaaatgagactaatgatgtagtggtttaatggtaagtgaatgtgttgttgcagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACATACATATTTGGAGCATGTTGTGCAACCACAGTCTTTATTCCTTCCTTCCACAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA