Sequence
atgc intronic sequence ATGC exonic sequencegtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G091811_T01 (Zea mays), 3'ss of exon 4
-------------------------------gtttttgcatagcctgctttat-atccttgcactaata-taaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
||| | | ||| || | |||| || || | ||| | || || || || ||| ||||| |||||||| ||||| |||||||||||||| |||||
tccaataatacagtgcacttttaaaaataaaaccaatgc-tgatttaagatatgatgatatcacttgtaacaaaatggtcctgaatcctttt-attttccagCCTATCGGAAGCTTGCTAGGAGCTATCATCCAGATGTAAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G856084_T01 (Zea mays), 3'ss of exon 4
-----------------------------gtttttgcatagcctgctttatatccttgcactaatata--accttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
||| ||| | | || | | | || | || || | || || || ||| ||||| |||||||| ||||| |||||||||||||| |||||
tagtagtacctgatactgaatagagtatgaatttgatatacataacatgatgttgtattgtttattttctgtgttggtcctgaatccttttattttccagCCTATCGGAAGCTTGCTAGGAGCTATCATCCAGATGTAAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G01960.1 (Glycine max), 3'ss of exon 4
----------------------------------gtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
||| || | | || | || | | |||||| | || |||| | ||| | | || ||||||||| ||||||||| ||||||||||||| |||||||||||
gttcctgcatatgatttacttgagtgtgcacatcttttatgtgttgattgtctgatgtatcatta-taatatcaaatttctctct--actttggacatttcagCTTATCGGAAGCTTGCCCGGAGTTATCATCCTGATGTGAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G38040.1 (Glycine max), 3'ss of exon 4
----------------------------------gtttttgcatagcctgctt--tatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
||| || || || | ||||||||| || |||||| || |||| | ||| | | || ||||||||| ||||||||| |||||| |||||| |||||||||||
tcctgcaaatatgatttacttgagtgtgctctttttttgtgtgtaaattgtctgttatatccttaca---atataaaatttctctct--actttggacatttcagCTTATCGGAAGCTTGCCCGGAGTTGTCATCCTGATGTGAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 4
-------------------gtttttgcatagcctgctttat-atccttgcactaatat-------aaccttact----ctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
| || |||||| || || | || || ||| | | | | || || | |||| || || || ||| ||||| ||||||||| ||| ||||||||||||||| |||||
atctgcatattatttgcttggttgtgcatattatgtattgtgattagtgacctagtgtgtgtgtcagcaatatcaaagctctttacttttgatatttcagCATATCGGAAGCTTGCCCGGAATTATCATCCAGATGTCAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G31080.1 (Glycine max), 3'ss of exon 4
--------------------------gtttttgcatagc------ctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
|| || |||| | | | | || || | | | | || | |||| || || || ||| ||||| ||||||||| ||| ||||||||||||||| |||||
tgcatattatttgcttggttgtgcatattcttttatagtgattagtgacctagtgtgtctgtcttagcaatatcaaag-ctctttacttttgatatttcagCATATCGGAAGCTTGCCCGGAATTATCATCCAGATGTCAACAA
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G39960.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------------------gtttttgcatagcctgctttatatccttgcactaatataaccttactctg--tgtactcttca----tcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
|| | | ||||| | ||| | |||| | || || | |||||| || | ||| ||||||||| ||||| || ||||||||||||||||||||||||||
gtatgcaattctatttcactgagttccctaatcaggaaaatgcaacactcatgtgtagcattgatgtttctctttgatgagcttcatgtgttcagcttttaagttgtgcttttctatagtttgacaatgattctactctgcacctattttgcagCTTATCGGAAGCTCGCTAGGAGTTATCATCCAGATGTGAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
ctcttcatctt CT-rich tract
actaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttgcatagcctgctttatatccttgcactaatataaccttactctgtgtactcttcatcttgtagCTTATCGAAAGCTTGCCAGGAGTTATCATCCAGATGTGAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG