Sequence
atgc intronic sequence ATGC exonic sequencegtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtgatcataggcttcagattcttgtaagattttgtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14255.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os11g34860.2 (Oryza sativa), 3'ss of exon 2
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtgatcataggcttcagattcttgtaagattttgtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
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---------------------------------------tgctggagataatataaccccgtct--atctatatttttagcgttttg--tagtgtgagtgaaatcttatggttcacatttct------ttgtttcgatc--------attatgt----cagGCAGTTCATGTTGCAGCTCAGTATGGACAAACAGCATTCTTGCACCACATTATCTCAAAGTACGGTGCAGACTTTGAGTGTTTGGACAATGATGGGAGGA
upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G30380.1 (Glycine max), 3'ss of exon 2
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtgatcataggcttcagattcttgtaagattttgtcgatctacgacatgttttgttg-tgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
| | || |||||| | | ||| || ||||| | || | || | || || | || || | | | | | ||| |||||||||||||||||||| | ||||||||||| |||| ||| | ||||||||| | || | || ||||| | | | | | |||| ||| || |||
-------------------------------------------------------acctgttccta---tataaggaaaaccctggacttatt-ctgctt--accacctgttt-aaatgtttccagttttgtgctattttcatagttaaatggttcctgcagGCAGTTCATGTTGCTGCACAATATGGACAGGCAGCTTTCTTAAATCATATTGTAGTAAAGTACCATGCTGATTTTGATGTGCCTGATAATGATGGATGGA
upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G06860.1 (Glycine max), 3'ss of exon 2
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtgatcataggcttcagattcttgtaagattttgtcgatctacgacatgttttgttg-tgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
| | || |||||| | ||| || |||| | || | || | || || || || | | | | | ||| |||||||||||||||||||| | |||| |||||| ||||| ||| | ||||||||| | || | || ||||| | | | | | |||| ||| || ||||
-------------------------------------------------------acctgttcct---ctataaggaaaaccctgaacttatt-ctgcct--accacctgttt-aaatgttttctgtcttgtgctattttcatagttaaatggttcctgcagGCAGTTCATGTTGCTGCACAATTTGGACAGACAGCTTTCTTAAATCATATTGTAGTAAAGTACCATGCTGATTTTGATGTGCCTGATAATGATGGAAGGA
upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 2
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtg-atcataggcttcagattcttgtaagatttt-gtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
| || || | ||| |||| || ||| | | || || || |||| || || | | || || | | || | |||| ||| |||||||||||||||||| ||||||||||||||||||| ||| | ||||| || ||| | || || || | | | |||| |||| || ||||| |
-----------------------------------------------------------ggtcttga--tctaaattttctgatctatttcttgtttttatgcatactaagcttgttatattttcaggcttgcagttgttaaacccaacatttttttg--cagGCAGTTCATGTTGCTGCTCAATATGGACAAACAGCTTTCATAAATCACCTTGTTGCAAAGTACCATGCAGATTTTGATGCACCGGATAGAGATGGGAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggcttcagattcttgtaagattttgtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
ttttgtt CT-rich tract
taagatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatcttctttctgttgtaatttttgtgtttttgtttgctaaaggtgtgtgaaatggatcaggagttataagttttgcatcaggcttgttgctgctgtgatcataggcttcagattcttgtaagattttgtcgatctacgacatgttttgttgtgcagGCAGTTCATGTTGCTTCTCAATATGGACAAACAGCATTCGTGAATCATATTATTGTGGACTATGCAGCTGACTATAACGCACTAGATATTGAAGGGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA