Sequence
atgc intronic sequence ATGC exonic sequence...cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 17
cactgaacagagtctttaatattgttactgactaggtgttggtg-ggcaa--gaattgtttgtttctctaacctgtat-ttataccttgatcattgataac-cagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
|| ||| || ||| || || | || | | ||| || | || | | || ||| ||||| || ||||| |||||||| || || ||||||||||| || || ||||| |||||||| || ||||||||||||||||||
-----------------------------------gtattgctgtaacaattgatttatgctttccataactctgcatatcatgtaactacctttcatattacagGCGGCCAATGATTGTGATCTGGAACCGGTTGCTTATGAGTTCTTTACTCAAGCATTCATCTTATATGAAGAAGAAATTGCG
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 17
cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
| | | | | | || | | ||| | | | | | || | ||||| ||||||| |||||||||||| | || || ||||||||||| || || ||||| || |||||||| ||||||||||||||||||
------------------------------gtatgcttgtaatactgcatatttttgtaagtcttcctcttattatctgattatgtttcttgat--ttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATATTATATGAAGAAGAAATTGCG
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 18
cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaac-ctgtat-ttataccttgatca--ttgataacc-agGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
|||| ||| | || | ||| ||| || || ||| | |||| | || ||| ||||||| |||||||||||| | || || ||||||||||| || || ||||| || ||||| || |||||||||||||| ||
---------------------------------gtatgtttgtgat-----actgcgtattttcataattcttcatcttactctctgattatgtttttaatttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATTTTATATGAAGAAGAAATCACG
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 17
--------cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
|| || | ||| |||||| | ||| | | | | | ||| |||||| ||| | | || || || || ||| ||| |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||| ||||||||||||||||||
tttcctgacattgtagagactctttatcctgattattacaaatctctcatttcacaa-------ctgtttcagtaattttttttctcacttttattattaata-tcagGCTGCTAATGACTGTGACCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTTGTATTATATGAAGAAGAAATTGCG
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 18
-------cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
|| || ||| |||||| | ||| |||| | || | | || ||||| | | | | | || || || || ||| ||| |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||| |||||||||||||||||
ttcctgacattgttgagactctttatcttgatta-tgacaaatctctgatttttcacaagtgttt----cagtgattttttttctcacttttattattaata-tcaGGCTGCTAATGACTGTGACCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTTGTATTATATGAAGAAGAAATTGC-
upper sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 17
--------------------------------------------------------------------cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgt--ttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
| | | | || || || | | | | ||| | |||| | || | | | || | | | || |||| ||| || | ||||| || | |||||||||||||||||||||||||||||||||||| || || ||||| || || || || ||||||||||||
gtaatttatagggttagggttactattatttcgaactcagaataacgtgacttacaatattaatggaatccagtaatctattgttcattttatctcagtttttttgtagcaaggcagaatctgacatagcattctcaatattttgtcttatcttgg--attcatgaacagGCCGCAAGTGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTTACCCAAGCATTTATGTTATACGAGGAAGAAATTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
tgtatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactgaacagagtctttaatattgttactgactaggtgttggtgggcaagaattgtttgtttctctaacctgtatttataccttgatcattgataaccagGCTGCTAATGACTGTGATCTTGAGCCTGTTGCTTATGAATTTTTCACTCAGGCATTCATATTGTATGAAGAAGAAATTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - gaacaga
- - - - - - - - - - - - -tactgac
- - - - - - - - - - - - - - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - - - -gcaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taccttg