Sequence
atgc intronic sequence ATGC exonic sequence...tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g43576.1 (Oryza sativa), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| | | | | ||| || || || | ||| ||| | || | ||| || || || | |||| ||||| || || || || |||| || |||||||||||| | ||||| || |||||||||||||||||||||||||| | || || |||||| | |||
---gtacgatccaccgacgat-tat-tgcattattggcatgttgagatgataatgcaaaagactttagaaccgatgc---ttctttttttttttttgcagCGTAGACTATGTTGTGCTGACAAGTGTTGATAGAGATGACCTTCCTGATGGTGGAAGTGGCCATTTTGCGCAAACAGTGAAGGCTCTAAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G101698_T02 (Zea mays), 3'ss of exon 2
-----tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattat-acttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| | |||| ||| || || | | || | |||| | | | | | | || | ||| || | |||| || | || | ||||| ||||| |||| ||||| ||||| ||| | ||||| | ||||||||||||||| |||||||||||| ||| || || ||| | |||
tagatttaacatgttactc-taagttgtatgttaatcactgttcatttgctgtttatgtggttgattacatggctgatctaaggaatactgttctt-----tccagTGTAGATTATGTTGTGCTAACCAGTGTCGATAGAGATGACTTACCTGATGGTGGAAGTAGCCATTTTGCTCAGACAGTGAAAGCTTTAAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G101698_T01 (Zea mays), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattat-acttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| | |||| ||| || || | | || | |||| | | | | | | || | ||| || | |||| || | || | ||||| ||||| |||| ||||| ||||| ||| | ||||| | ||||||||||||||| |||||||||||| ||| || || ||| | |||
ttaacatgttactc-taagttgtatgttaatcactgttcatttgctgtttatgtggttgattacatggctgatctaaggaatactgttctt-----tccagtgtagATTATGTTGTGCTAACCAGTGTCGATAGAGATGACTTACCTGATGGTGGAAGTAGCCATTTTGCTCAGACAGTGAAAGCTTTAAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G24430.1 (Glycine max), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattt--tgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| || | | |||| || | | ||||| || | | | || | | | | | |||| | | | ||| || || |||||||| ||||| |||||||||| ||||||||||||||||||||||| ||||||||||||||||||| |||||| || |||||||||
-acaagttacaatgcctagattgatcatgggcatatattttgtgctgctaaaactttattagatctcattccc-tgttaattacaagctaccttttttgcagCGTGGATTATATTGTCTTAACAAGTGTGGATCGTGATGATCTGCCTGATGGAGGAAGTGGCCATTTTGCTCAGACTGTCAAAGCTATGAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 4
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcatttt-gtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| || | | |||| || | | ||| | || || | | || | | | | | | | |||||| | ||||||||| | ||||| ||||||||||| ||||||||||||||||||||||| ||||||||||||||||||| |||||| || |||||||||
-acaagttacaatgcctagatttatcatgggcatatattgtgtgctactaaaactttattagatctcattccctgctaattacaagctaccatttttgcagTGTGGAT-ATATTGTCCTAACAAGTGTGGATCGTGATGATCTGCCTGATGGAGGAAGTGGCCATTTTGCTCAGACTGTCAAAGCTATGAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttatta-tacttgcttggaaaattataaga----attttg-attttcattt--tgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| ||| | | || | | | ||| | | || ||| ||| | || | || || || | | |||||| |||||| ||| || ||||| || ||||| ||| | || || || || ||||| ||| | ||||||||||||||||| |||||||| | |||||| || |||||||||
-----gaaaattaaaaatagtgtctctca---acagtcactactgcatctttgttaatttatgatgggtgtatcatgatatgctattttgcattttcctttgttgcagTGTAGACTACATAGTTATTACCAGCGTAGACCGTGACGATATACCTGATGGTGGAAGTGGACATTTTGCGCAGACTGTCAAAGCTATGAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ08741 (Selaginella moellendorffii), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| | | || || | | | | | | | ||||| | | || | | || ||| ||| ||||| | || |||||||| || || |||||||| |||||| |||| || || || || |||||||||||||||||||| | | | |||
-------------------------gtaagagatcgatcgagcagtttttctcctgt-cgttcttggtga--tggaaaactcttttctttgctttcccagTGTAGGATATATTGTTCTCACCAGCGTTGATCGCGATGATATGCCCGACGGCGGCAGCGGCCATTTTGCTCGGACTGTAAGAACGCTCAAG
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ06444 (Selaginella moellendorffii), 3'ss of exon 2
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
| | || | | | || | | | | | || | | || ||| ||| ||||| | || |||||||| || || |||||||| |||||| |||| || ||||| || |||||||||||||||||||| | | | |||
-----------------------------gtaagagatcgatcgagcagcttttctccttcgttcttggtgatggaaaactcttttctttgctttcccagTGTAGGATATATTGTTCTTACCAGCGTTGATCGCGATGATATGCCCGACGGTGGCAGCGGCCATTTTGCTCGGACTGTAAGAACGCTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
ttttgat putative branch site (score: 4)
ttttcatttt CT-rich tract
aaaattataagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgcgtgttttagacaagatgcatatgatctacaaattttttggtatgtttattatacttgcttggaaaattataagaattttgattttcattttgtagTGTGGATTACATTGTTCTAACAAGTGTTGATCGTGATGATCTGCCTGATGGTGGAAGTGGCCATTTTGCTCGGACTGTTAAGGCTATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- tgcgtgt
- - - - - - -gacaaga
- - - - - - - - - - -gcatatg
- - - - - - - - - - - - - - - - acaaatt
- - - - - - - - - - - - - - - - - - - - - -ggtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagaa
