Sequence
atgc intronic sequence ATGC exonic sequencegtctgaatctcttaaaactttattaggttatgacaacctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------gtctgaatctcttaaaactttattaggttatg--acaacctttccaaatcttcttgctttataaacttaatcttctg----tgtgcatt---tgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
| || | | ||| || || | || | | | | ||| | || | ||| | || | | ||| || | |||||| ||||| |||||||| ||||||||||||||||||||||||| ||||||||||| |||||||| || || ||| |||||||| ||||| ||||| |
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G062084_T01 (Zea mays), 3'ss of exon 2
gtctgaatctcttaaaactttattaggttatgacaacctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
|| || | | | || | | | ||| ||| || ||||| | | || ||| ||||| | |||||| ||||| |||||||| ||||||||||||||||||||||||| ||||||||||| |||||||| || || ||| |||||||| ||||| ||||| |
gtttgttgcattcagccaccagcactgtcagcatt-catttttaaaaaatcaagctttttcacactatgctt-----tgcatct--atagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 1
-------------------------------------------------gtctgaatctcttaaaactttattaggttatgacaacctt---tccaaatcttcttgctttataaacttaatcttct-----gtgtgcatt---tgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
| || | | | ||| || || ||||| | | || ||| | ||| |||| | || | || | | || | |||||| ||||| |||||||| ||||||||||||| || |||||||| ||||||||||| |||||||| || || || || ||||| ||||| ||||| |
gtggaaaaatgaagaactgtgaagagcacactttgcaatgagagaagttcacggagccattgcatggtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatactttgcatctatagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G150984_T02 (Zea mays), 3'ss of exon 2
gtctgaatctcttaaaactttattaggtt--atgacaacctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
|| || | | || || | || | | | ||| ||| | |||| | | | || |||| | |||||| ||||| |||||||| ||||||||||||| || |||||||| ||||||||||| |||||||| || || || || ||||| ||||| ||||| |
gtttgttgcattcaaccaaccatcactttgaacgttcatttttttaaaaccaagatttttacgaggtatacttt------gcatct--atagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G029134_T01 (Zea mays), 3'ss of exon 1
gtctgaatctcttaaaactttattaggttatga---caacctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
|| || | | || || | || || ||| ||| | |||| || | | || |||| | |||||| ||||| |||||||| ||||||||||||| || |||||||| ||||||||||| |||||||| || || || || ||||| ||||| ||||| |
gtttgttgcattcaaccaaccatcactttgaacgttcattttttttaaaaccaagatttttacaaggtatacttt------gcatct--atagATTATCCTGGATGTCCCATCTGTGGGAGGAAGATTAATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCTGCAGGACAAACAGGATTTGAAGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 3
gtctgaatctcttaaaactttatta-ggttatgacaacctttccaaatcttcttgctttataaacttaat-cttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
| || | || | | | |||| ||| | | | ||| | | | || |||| | | | | | | | || || |||||||||||||||| ||||||||||| || | |||||||| |||||||| || || ||||||||||| |||||||||||||||||||| || || |
----gtatgtggtagctttggaggatggttctgattaaatctataaagttcccttgattggtaactgattacatgtattctattctgatcagGTAATCCTTGATGTCCCAACTGTGGGAGGGCGGCTAATGCTTGTGGACATGGCAGGATCAGAAAATATTGAACAAGCTGGTCAAACTGGATTTGAGGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 2
gtctgaatctcttaaaactttattaggttatgacaacctttccaaatcttcttgctttataaactta-atcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
||| || || | ||| || | | | ||| | | | | ||| | | ||| || ||||||||||||| || ||||||||||| || | |||||||| |||||||| || || ||||||||||| ||||| |||||||||||||| || || |
---------gtaaaaagctgctttggaagatggt--tctaattagacttgattggtaactgattacatgtctgtcttatattttttatcagGTAATCCTTGATGTTCCAACTGTGGGAGGGCGGCTAATGCTTGTAGACATGGCAGGATCAGAAAATATTGAACAAGCCGGTCAAACTGGATTTGAGGCCA
upper sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G14330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtctgaatc-tcttaaaactttattaggttatgacaacctttccaaatcttcttgctttataaacttaatcttctg--tgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
|| ||| |||| || || | |||| | |||| | ||| | || | | |||||| | | || ||| ||| ||||| || |||||||| || ||||| || ||||| ||||||||||||||||||||||||||||||||||| || |||||||| || |||||||| ||||| |
gtaagaacgatcttcttgattgatgtg--tatgcatagctttatgcagcttatctctgttttaacttactagtgtggttgtttctttttgtagATCATACTTGATGTGCCAACTGTTGGGGGAAGATTGATGCTTGTTGACATGGCTGGTTCTGAAAATATAGACCAAGCTGGGCAGACTGGATTTGAAGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
acttaat putative branch site (score: 4)
tttataaacttaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgaatctcttaaaactttattaggttatgacaacctttccaaatcttcttgctttataaacttaatcttctgtgtgcatttgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA