Sequence
atgc intronic sequence ATGC exonic sequence...cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaagcatgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g70200.1 (Oryza sativa), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaag----catgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | || | |||| | | |||| | | ||| || ||| || || | || | ||| | || ||||||||||||||||||||||| ||||||||||| || || || ||| | ||||| | ||| || || || |||||||| |||||||| ||| | || |||||||
-gctatgcttctaaaatttagaatattcttttcc---ctaattctgtgcaaggtctatagatactccatagcttttgcttaatattgtggcgaaacaaatgcagGAAGTGCTGGTGATGTGTTGGAAGATGACCCTGTTGGGAGGCTTAAGGTCTATGTCTATGATCTCCCAAGCAAGTACAACAAGAAGCTGCTGAAGAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g32110.1 (Oryza sativa), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaagcatgtaatctg-atctccactt--tgggtttcaatgaa-tgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | | || ||| ||||| | | || || || | | ||||| ||| | || || ||| ||| ||| ||||||||||||||||||||| | ||||| ||||||| || |||||||||||||||| || || | |||||||| || ||||| | ||| | |||||
ttatattataacttcatgactggttttcttgg--aatctgctt--atcagttttatgaagatagtactatgtgcttctactcaaccaagatcattgacctgcagGAAGTGCTGGTGATGTGCTAGAAGACAATCCAGTTGGGCGGTTGAAGGTTTTTGTTTATGACTTGCCAAGCAAGTATAACAAGAGGATAGTCGCCAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G059825_T01 (Zea mays), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcag----tttgatttaatggggactctgaagca--tgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | | | || | ||| || || || | | | || | || | || || | | || | | ||||||||||| ||||||||||| || |||||||| || || || ||| | ||||| | ||| || || || || |||||||||||||| ||| | || |||||||
------tgcctagctagcgtaccgttccttcaggagaactcttagctaggtatgttcttttccccaattttatgctagccctaatgctgtggcgaaccaaatgcagGAAGCGCTGGTGATGTGTTAGAAGATGACCCTGTTGGGAGGCTCAAGGTCTATGTCTATGATCTCCCCAGCAAATACAACAAGAAGCTGCTCAAGAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G152029_T01 (Zea mays), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaagcatgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | || | || || | | | || | | ||| | | || | | ||| ||||||||||||||||||| ||||||||| | || || || ||| | ||||||| ||| | || || || || ||||||||||| ||| | | |||||||
ttttatgatcctgtgatccctagcatggttctaaggcccaagtatattcttttccctacctttgtgcaaagcctgtaatgatgtggccgataaaattcagGAAGTGCTGGTGATGTGTTGGAAGATAACCCTGTTGGGAGGCTCAAGGTTTACGTGCATGATCTCCCCAGTAAATACAACAAGAAGCTGGTGAAGAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaag--catgtaatctgatctccactttgggtttcaatgaat-gcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | | | | |||||||| | || | | | | | | | || || | | | || ||| | || ||| ||| ||||| |||||||||||||| ||||||||||||||||| |||||||||||||||||||| || || |||||||| ||||| || || || || || || |||||
-cttacatt--agcaattctatttctggagatacattgtagtcaactacactttttaaattctgcgtgaggctaaatgcatgttgtggttgaatcaattgcagGTAGTGCTGGTGATGTATTGGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGTAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G37920.1 (Glycine max), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgattta-atggggactctgaagcatgtaat-ctgatctccac-tttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
| | || | ||||| |||| | | || | || || | | | | | || | || || |||| | |||| ||| |||||||||||||| || |||||||||||||| |||||||||||||||||||| || || |||||||||||||| || || || || || || |||||
---gtcaaatacaagtctctaaattctgtgatttatttcaaaatatattatagttaaataaaaaatgacactactaagcatgttctggttgaaccaaatgtagGTAGTGCTGGTGATGTGTTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 1
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaagcatgtaatctgatctccactttg-ggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
|| |||||| | | | || | | | | || | | || | | || | || ||| |||| | |||| ||| |||||||||||||| || |||||||||||||| |||||||||||||||||||| || || |||||||||||||| || || || || || || |||||
-------gtctctaaattctgtggtttatttcaaaatatattatagttaaa----taaaaaaatgagactactaagcatgttgtggttgaaccaaatgtagGTAGTGCTGGTGATGTATTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv01s0150g00180.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 3'ss of exon 1
cccgagagttaaacaattctaagttctct---tgagcagtttgatttaatggggactctgaagca---tgtaatctgatctccactttgggtttcaatga-atgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
|| ||| || | ||||| | ||||| | || | | | ||| | | ||| | || ||| ||| ||| | ||| |||||||||||||| |||||||||||||| || ||||| |||| || ||||| || ||||||||||| ||||||||||| ||||| |||||||||||
----agcattatc---tttcaggttctgtgattgagctacatagttaatccttgcttatgatgtgaactttaagtgtgtatctgtttttttcttctctgatgtttagGTAGTGCTGGTGATGTGTTGGAAGATGATCCCGTGGGAAGACTGAAAGTCTTTGTTTATGAGCTTCCAAGTAAATACAACAAGAAGATACTTCAGAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggggactctgaagcatgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
atctgat putative branch site (score: 4)
atgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cccgagagttaaacaattctaagttctcttgagcagtttgatttaatggggactctgaagcatgtaatctgatctccactttgggtttcaatgaatgcagGAAGTGCTGGTGATGTTTTGGAAGATGATCCAGTAGGAAGGTTGAAGGTTTTTGTGTACGAGCTTCCAAGCAAATACAACAAAAAGATCCTTCAGAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - aaacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - ctctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgta