Sequence
atgc intronic sequence ATGC exonic sequence...aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttccttgcttgagataattctattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G007038_T01 (Zea mays), 3'ss of exon 3
aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttccttg--cttgagataattctatta-tgtcctc--ccctttga------agGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
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gtgtatatatatataacttctgttgttatgtagtccacagttcaccc---gttttattttatgtacacttaagcatatgccattactattcttaattctttgagatctcagGCGTTTGGTGCAATGAGAGCTCGAGGAGCTAGAGTAACCGATATCTGTATTGTTGTTGTTGCTGCGGATGATGGTGTTCGGCCACAAACAAGTGAGGCAA
upper sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G40370.1 (Glycine max), 3'ss of exon 3
aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttcctt---gcttgagataat-tctattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
| ||| || || ||| | |||| |||| | |||| || | || | |||| || | |||||| | | ||| | |||| ||||| || |||||||||||||||||||| || || ||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || |
-tgtagtttttaactgaattattaactataact-ataagtaatcttttcactttcatttcctttagaagtctagatgatatatattatatgcattcctgt--agGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
upper sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G18580.1 (Glycine max), 3'ss of exon 4
aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttccttgcttgagataattc---tattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
| ||| || || ||| | |||| ||||| ||| ||| |||||||| ||| || ||| | | | || |||| ||||| || ||||||||||| |||||||| ||||| ||||| |||||||||||||||||||| |||||||| |||||||||||||||||||| || |
-tgtagtttttagccgaattattaactataact-ataa-ctcaacttttcactttcatttcctttagaagtatagttgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGCGGAGCAAGTGTTACAGACATGGCTATTATTGTTGTGGCTGCCGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
upper sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G17220.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------------------------aaccatcattttaccatttttctaatg-gccttttataaactcaattttgagcttcaatttccttgcttgagataattctattatgtcctcccctt---------tgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
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gtagattctttttcttgcaattgaatcttcgcatgttcatttctgatgctgaagtatcattaattat-acttcatgagctttcttacatgtagcatgtttattgactatctcacatctattgctaggcataccatagttttact-catcttacttttatgtcctcatctagGCATTTGGTGCAATGAGAGCTCGCGGAGCACGAGTCACTGACATTGCAATCATTGTGGTTGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgagcttcaatttccttgcttgagataattctattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
ttctattatgtcctcc CT-rich tract
agataattctattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttccttgcttgagataattctattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
-accatca
- - - - - - -ccatttt
- - - - - - - - - - - -aatggcc
- - - - - - - - - - - - - - - - - - aaactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcctc