Sequence
atgc intronic sequence ATGC exonic sequencegtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14410.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os08g04110.2 (Oryza sativa), 3'ss of exon 3
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
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--------aacactgaactcccggcatattgcttgcttgtgttgttcataatgagtac----cagaaatccagaattgtatttctttcttaccagtaca-------tctgggcttgcagATATATTAGTTCAGTCATTCCAATCGGAGCAATGTTTGCAATGACACTCTGGCTAGGGAACAGTGCTTACCTCTATATATCTGTTGCATTTGCACAGATG
upper sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G022793_T01 (Zea mays), 3'ss of exon 3
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
||| | | || | | || || ||| | | | | | | ||| | | || | | | || || || || | | |||||||| |||| ||||| |||||||| || | ||||||||||||||| || ||| | || |||| ||| |||||||||||||| || |||||||| ||||||
-----------------ttcatttgtgcttgtactatgatgttcctgaactcattgttttatttactttaagtacaagaactgtctttttttccttactagttccctgaactt--tcagATATATTACTTCAGTCATTCCAATTGGAGGAATGTTTGCAATGACACTTTGGCTAGGGAACAGTGCGTACCTCTACATATCTGTCGCATTTGCACAGATG
upper sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G18730.1 (Glycine max), 3'ss of exon 4
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
| | || ||| || | | ||| || | || ||| || | | | ||| | | || ||| | | | ||| || ||||||| | ||| || || | ||||| || || |||||||||||||| || ||| ||||||| ||||||||||| || || || ||||| ||||| || |||
-------------aaattttttaa----cttcaagtctatgtaccttaata-gtttattgcattaaatgcataagatgtttccaaattccagttgtaattatac-cttgattgtttcagATACGCTACTTCGGTAGTGCCAATTGGGGCCATGTTTGCAATGACTCTTTGGCTGGGAAATACTGCCTACCTGTATATTTCTGTTGCTTTTGCACAAATG
upper sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G40160.1 (Glycine max), 3'ss of exon 3
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
||| | | | | || | || | | | | ||||| || ||| | |||| | |||| || ||| || ||||||| | ||| ||||| | ||||| || || |||||||||||||| || ||| ||||||| ||||||||||| || || || ||||| ||||| || |||
---------aaaattattaacttcaagtctatgttccttaatattttattgcattaaatgcataag-atgtttccaaattccagt--tgtaattatac-------cttgattgtttcagATACGCTACTTCAGTAGTGCCAATTGGGGCCATGTTTGCAATGACTCTTTGGCTGGGAAATACTGCCTACCTGTATATTTCTGTTGCTTTTGCACAAATG
upper sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
|| || | | | ||| | || |||| | | | || | | | | ||| | | ||| | |||||||| ||| || || || || || ||||||| ||||||||||| || ||| ||||||||||||| ||||| || || || ||||||||||| || |||
-----------------ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaaca--aatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
tttactaattttatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG