Sequence
atgc intronic sequence ATGC exonic sequence...atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 4
---atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
| | | | || | | | | || || || || ||| | ||| | ||| | | | || ||| |||||| || ||||| ||| | || || || ||||| ||||| || || | ||||| || || ||||||| ||||||||||||||||| |||||||| || |
agtagatgcatgtcactgtgtcatcatctttagttggatgtgttatacttttcacactagcccttcttgtttctcactcagtgcggtttcttt--tga-acagGATCCTGATGACACTTTGAAACGCAAGACCTTCGAGCTTCTTTACAAGATGACAAAATCAACAAATGTTGAAGTGATTGTTGATCGAATGATTGAGTATA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 3
-----atgttccctttcctattaatgcttatcaagaaagaaaaattgataagtt-ggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
||| || ||| | | || | || | ||| |||| ||| | | | | || || | | | || ||| | ||||||||||||| ||| | ||||| || || |||||||| || |||| ||||| ||||| ||||||| || |||||||||||| | |||||||| ||||
agtatatgcatttctttgtatcagcgatt-tagcattttttttgttactgtgtttggtgagcactctcgatttctcactcactgtgtact---cctg-tga-atagGACCCAGATGACACTTTGAAGCGCAAGACATTTGAGCTTCTTTATAAGATGACAAAGTCAACAAATGTTGAGGTGATTGTTGATAGGATGATTGAGTACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 4
atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgta-----ttttaatccaagtttgatgtgc---ttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
| | | || || || ||||| | | ||| | ||| ||| | || | ||| | | | | | ||||| ||| | |||| |||||||| ||| | ||||| || ||||||||||| || |||| ||||| || || ||||||| ||||||||||||||| | |||||||| ||||
-tatacatatttcttttg-----tatcagcgatttagcatttttt-gttactgtgttttgtcagtagcactctcgatttctcactcactgtgcaatcctgtga-atagGATCCAGATGACACTTTGAAGCGCAAGACCTTTGAGCTTCTTTATAAGATGACAAAATCAACAAATGTTGAAGTGATTGTTGATAGGATGATTGAATACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 3
----atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
| || ||| | |||| | || ||| | | | || || || || || || || || |||||||| |||||| |||| ||||||||||| ||||| ||||| || | ||||||||||||||| |||||||||||||||||||| | |||||||||||||
acacaaattgtgagcttctggaatatatttcaatattttaagtttgtcccaa-actatgcagttcagaacttcacattaaaattcaatttgtatggtg---cagGACCCTGATGATTCTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTGGAAGTGATTGTTGACAGAATGATTGATTACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 3
atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaa---tccaagtttgatgtgctt--gatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
| ||| | | | || | | || | |||||| | ||||| | || | | ||| || || || ||| |||||||| ||||||||||| ||||||||||| ||||| ||||| || | ||||||||||||||| ||||| |||||||||||||| | |||||||||||||
----acacttatttgtgagattttggaatatatttcaatattttaagttaatcc-caaactttgcagttcagaacttcaaattaaattcaatttgtatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 3
atgttccctttcctattaatgcttatcaag----aaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
|| | | || | || ||| ||| | | || | | || | || | ||| | || || |||||||| |||| |||||||||||||||| ||| || |||||||| ||||| || |||| | |||||||||||| || |||||||||||||||||||| | |||||||||||||
-aattacaatgccccctgttgtttacaaagttttgtgcatagtttcttctaatcatgctcaattttggaattctgattaaaatttgatgtatgtgatt---cagGACCCAGATGATAGTCTGAAACGAAAAACTTTTGAACTGTTATACAAAATGACCAAGTCCTCCAATGTGGAAGTGATTGTTGACAGAATGATTGATTACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 3
-atgttccctttcctattaatgcttatcaaga--aagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
| | | | || | || ||| ||| | | || || | | || | || | ||| | || || |||| ||| ||||| |||||||||||||||| ||| || |||||||| || || || |||| | |||||||||||| || |||||||||||||||||||| | |||||||||||||
aaaatcacaatgccccctgttgtttacgaagttctgcatagtttcttatgatcatgctcaattttggaattctgattaaaatttggtgtatgtgatg---cagGACCCAGATGATAGTCTGAAACGAAAAACTTTCGAACTGTTATACAAAATGACCAAGTCCTCCAATGTGGAAGTGATTGTTGACAGAATGATTGATTACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 3
atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
|| | | ||| || | || | || | | | | || | | | || | || || | | |||||| ||||||||||| |||||| | || || ||||| | | || | |||||||||||| || ||||| ||||||||||| || || |||||||||||||
gtgagctgaagcaagagaatttttttttttttttttttcatg-tgagctaattgtttgttttcttgcctgatgttcgtttcgttgctactgttca-acagGATCCAGATGATACACTAAAGAGGAAGACTTTTGAATTGTTGTACAAAATGACCAAGTCGTCTAATGTAGAAGTGATTGTCGACCGAATGATTGATTACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
ttctttgtattttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaatccaagtttgatgtgcttgatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - -ccctttc
- - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - gttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtg