Sequence
atgc intronic sequence ATGC exonic sequencegtaagttactaccaataatttttatcttccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G07160.1 |
intron # | 37 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: LOC_Os03g02756.1 (Oryza sativa), 3'ss of exon 4
gtaagttactaccaataatttttatcttc-----cgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
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gtaagtgcttttacataatatatattttctatttcatgagtcatttcaagttacatactgtcaacatt-tggaattctt---ttgcagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATATAACGAGGGGTGGAATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAG
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 3
gtaagt-----tactaccaataatttttatcttccgtga--acaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
|||||| ||| || ||| | | | | ||| | | | || | || | | || | || | || ||| | | ||||| ||||||||||||||||| ||||| ||| | |||||||| ||| | ||||| || || ||||||||||| ||||||||| |||||
gtaagtgcttttacatagtatgttttctgtttcacatgaggatcagctaaaattgtgtgtagttaatacatgaaaccttttcttttgtagAGTGAGAATGCACTATGGTCATCCAGATGTTTTTGATAGAATTTTTCATATAACAAGGGGTGGAATTAGTAAGGCCTCTCGCAGCATCAATATCAGTGAG
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 40
gtaagtt-actaccaat--aatttttatcttccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
||||| | | ||| ||| | || | ||| || | | |||| || ||| | | | || |||| ||| |||||||||| ||||| ||||| ||||| ||||| ||| |||| || || || |||||||||||||||||||| || || || ||||| |||||||||
gtaagcccattttaaattaaataatgatttctcgtcaa-gattcaaactaag----------tatgacaatgatgctctattc-agGGTCCGCATGCACTATGGGCATCCTGATGTTTTTGATAGAATATTCCACATAACCCGTGGTGGTATCAGCAAGGCTTCCCGTGTTATCAACATTAGTGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 38
gtaagttactaccaa--taatttttatcttccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
||||| | || ||| | | ||| | ||| | ||| | | | || | | | || ||| |||| |||||||||| ||||| ||||| ||||| ||||| ||| |||| || | || |||||||||||||||||||| || || || ||||| |||||||||
gtaagcccattttaaattaaataatgatttcttttgtcaa----gaatcaaactaagt----atgacaatgatgctctatt-tagGGTCCGCATGCACTATGGGCATCCTGATGTTTTTGATAGAATATTCCACGTAACCCGTGGTGGTATCAGCAAGGCTTCCCGTGTTATCAACATTAGTGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
gtaagttactaccaataatt------tttatcttccgtga-acaacttgaactcagatggaatccttattctattatttctgaatt-ctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
||||||| | | ||| ||||| | || | | | || || | | || | | | ||| ||| | ||| | || ||||||||||| ||||||||||| ||||| ||||| || ||||| ||||| ||||||||||||||||||||||| || ||||| |||||||||
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
lower sequence: PP1S160_88V6.1 (Physcomitrella patens), 3'ss of exon 38
-------------------------------------------------------------------------------------------gtaagttactaccaataatttttatcttccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
| | || | ||| | ||| | || | | | || ||| | | || | || | ||| | | ||||| ||||| ||||||||| |||| ||||||||||||||| | || ||||||| | || || || || | |||||| | || ||
gtaggtttttctttatcttgtttcactgtaatgatataattaagcagttgaataaatgaagtactgaggtttatctcaacacttccaatttctgacatattgggaat--tctttcaataccctaagccgctaatttctgtatgctctgagcttatgatcgatatcaaaatgcagGGTGAGGATGCACTATGGCCATCCAGATATCTTCGACAGAGTATTTCATTTCACTACTGGTGGTGTAAGTAAAGCATCAGCTGGTATCAATCTCAGCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
ttatttct CT-rich tract
ttattctattatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttactaccaataatttttatcttccgtgaacaacttgaactcagatggaatccttattctattatttctgaattctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG