Sequence
atgc intronic sequence ATGC exonic sequencegtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G349810_T01 (Zea mays), 3'ss of exon 2
------gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
|| | |||||| | || ||| | | | | || |||| | || ||| | | | || | || || ||||||||||| ||| ||||| |||||| ||||||||||||||||| |||||| ||| |||| | ||| | |||| | ||||| | |||||||| |
aagaatgtttaggtcatttgtattgttgaaaagcaatctcatgttagtggatttata-tgacacaggactggatgaattcatatt---taatcttgtcacacagGACAAGGAGTCTCGGGATTTGAACAATGAAGAGAAGATTGAGGTTGCTGGTAAGGAGAAACAGGAATGGAATGCATTGTTCAAATTGGACAAATATGCTA
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G007488_T01 (Zea mays), 3'ss of exon 5
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
|| || | || | ||| | | | | ||| | | | || || || |||| || | | || | || || |||||||| |||||||| |||||| |||||| ||||||||||||||||| |||||| | ||||| |||| | ||||
--gtgcaactgatatt-catctgtgtgtgttctaagtcgttgacctgtgtgcagttgca-----aaattgattagTATAATCTTG-----TCACACAAGACAAGGAGTCTTGGGACGTGAACAATGAAGATAAGATTGAGGCTGCTGGTTTGAAGAAACAGGAAGGGAATGCATTGTTCA------------------
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 8
gtctgtaatatttgtttcgtctaaata-ttctttttcctcatgatatctataata--tttcataactaagt---tgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
|| |||||| | | | || | | ||||| ||| || || ||| | | | | | | | ||| | | | ||||||| ||||| || |||||| |||||||||||||||| |||| |||||||| |||||||| |||||||| |||||| | || || |||||||| ||||||
----acttcccttttttcgtttgcacacttgtccattttcatgctatggatgattattttggcagttttatctctagtaatcttaatctgttttctgccttcagGAGAAGGAGTCCTGGGATTTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGTGTTGTTTAAAGCTGGTAAGCATGCAA
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 8
------gtctgtaatatttgtttcgtctaaatattcttt-ttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
||| ||| | | | || | | || || | | ||| | | | | || || || | | | || | ||||| |||| |||||||| ||||| ||| |||| |||||||||||| |||||||| |||||||| |||||||| |||| |||| || ||||||||||||||||
tattttaactg-aatcatcacccggcccaatcaattttagtttcaaaagatcattgaatttctctatccaaaaattaattaataatttttgcc----tcttttagGAGAAGGAATCCTGGGACATGGACACGCCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G32830.1 (Glycine max), 3'ss of exon 8
-gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgtta-cctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA-
| | | |||||| | | ||| | | | ||| |||| | | || || || | ||| ||| | | |||||| ||||| || |||||| |||||||||||||||| |||| |||||||| |||||||| ||||| || ||||| | || || ||| ||||||||||||
tactttttacatttgtactct-tgtccattttcatactctggattatatatattttggcagttttatccctactaatcttatcctcttttctcacctcaggAGAAGGAGTCCTGGGATCTGAACACTGAAGAGAAACTTGAAGCTGCTGGTAAGAAGAAAGAAGAGGGAAATGTCTTGTTTAAAGCTAGTAAATATGCAAG
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G10730.1 (Glycine max), 3'ss of exon 8
-----gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
||| ||| | | | || | | ||| || | | || ||| | || | | | | | || | ||||| |||| ||||| || ||||| ||| |||| |||||||||||| |||||||| |||||||| |||||||| |||| |||| || ||||||||||||||||
tatttaactg-aatcatcaccctgccgaatcaatttttgagttccaaaagttcattgaattcctctaccta-taaataattaataatttttgc-ctcttttagGAGAAGGAGTCCTGGGACATGGACACACCAGAGAAGATTGAAGCTGCTGGTAAGAAGAAAGAAGAAGGAAATGCATTATTTAAAGCTGGTAAATATGCAA
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 8
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggc-ctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
|| | | | | || | | |||| || ||||| | | | | | || || | | ||| |||| | |||||| ||||| ||||||||||| ||||||||||| |||||| | ||||||||||||||||| ||| || || | || |||||| |
------gttagtgaagtattttggatgcttatgccgctcacaattcagtcaatatggaagtataagagtccaacac-ttgtttgtcattggctttttagGAAAGGGAATCGTGGGACATGAACACTGAGGAGAAGATTGAAGCTGCTAGTAAGAAGAAGGAAGAAGGAAATTCCAAGTTTAAAGGAGGCAAATATTCCC
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 8
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgtt----acctggcctattct--ttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
|| | |||| |||| || | | | | | || || | || | | |||| | | | | || | | | ||||| || || ||||||||||||||||| | || | ||| || ||||| ||||||||||| ||||||||||||||| | ||||| ||||| ||||| ||||
------------------gtgagaggattcactttctgagtgttgtttct--ttctttatgaagaaacttaagtgtgctaatgatatcgtctctcttgatgcagGAGAAAGAGTCTTGGGATATGAACACACAGGAAAGGATAGAAGCTGCAGGCAAGAAGAAAGAAGAAGGCAATGTGTTGTTCAAAGCTGGAAAATACGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
cctattctttc CT-rich tract
ataatatttcataact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtaatatttgtttcgtctaaatattctttttcctcatgatatctataatatttcataactaagttgacatgtgttacctggcctattctttcagGACAAGGAATCTTGGGATATGAACACTGAAGAGAAGATTGAGGCTGCTGGCAAGAAGAAGGAAGAAGGCAATGTGCTATTCAAGGCTGGTAAATATGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG