Sequence
atgc intronic sequence ATGC exonic sequencegtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 10
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
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-------------------------------------------------tgatctgagttctctattgttcctaagcatgttaacgtcacacataatttggtttct-tcaaatcttgtgttt-----gactttgacatttatgtccattctacagATGACCAGGCTTTTGGATATATTGGAAGATTATCTTATGTACAGAGGCTATCAGTATTGCCGGATAGATGGAAATACTGGTGGAGAAGATCGTGATGCAT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 10
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
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-------------------------------------------------tgatctgagttctctatggttcctaagcatgttaacgtcacacataatttggtttct-tcaaatctcgtgttt-----gactttgacatttatgtccattctacagATGACCAGGCTTTTGGATATATTGGAAGATTATCTTATGTACAGAGGCTATCAGTATTGCCGGATAGATGGAAATACTGGTGGAGAAGATCGTGATGCAT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 7
------------gtcagttgctgtctggaat-caaaatct--tgagt---tatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
|| ||| | | |||| || || | | || | || || || || || | | | || || ||| || | | |||||||| | | || | | |||||| | || ||| | | | | |||||||| ||| | |||| || | |||||||| | |||| | | ||||| | ||||||||||||||||||||||||||| ||||||||||||||||| |
gtgtgttttccaatcccatgcagatttgaatgcattatttatttagcaagtgtgtgttaggagatatcagacaccactctggatggtgagcatgtgcacagtgc----acctcattaaaaacttggttgtcctagaatttttatt--tgcctgacatagcacc-atcctgcagATGACCAGGCTTTTGGATATCTTGGAAGATTATCTTATGTATAGGGGATATCAGTATTGTCGAATTGATGGAAATACAGGTGGAGAAGATCGTGATGCAT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 10
---------gtcagttgctgtctggaatcaaaatcttgagttatgcatt--cagatgactcctg--------cagaccctttttttgtatgcctgtacat-tattctata-acctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
|| |||| | || | || || |||| | || || || | || ||||| | | || ||| ||| | | | |||||||| || | ||||| | || ||| | || | | |||||||| ||| | |||| || | |||||||| | |||| | |||| || | ||||||||||||||| ||||||||||| ||||||||||||||||| |
gtgattgttttccattgccatgcagatttgaa----tgcattattcgttagcaagtgtgtattgggagatatcagacaccgctcgtgggatgctgagcatgtgcacagtgcacctcattaagcactcgcttgtcctataattttcctt--tgtctgacatcgcatc-atcctgcagATGACCAGGCTTTTGGATATCTTGGAAGATTATCTTATGTATAGAGGTTATCAGTATTGTCGAATTGACGGAAATACAGGTGGAGAAGATCGTGATGCAT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 10
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttg-tggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
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--------------------------gtcagttctgtgtaggaataagattcttgg--cactaatagctatgactgtg--ttatttcaa----tcagcct-agtgtattt---gttccattctcgcttaatctgtggttcttc--------tccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTCGTGGATACCAATATTGTCGCATTGATGGAAATACTGGTGGAGACGATCGAGATGCTT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 10
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttg--tggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
| |||| || | || | | | | | |||| |||| ||||| | |||| | | |||| || ||| |||| ||| | | | || ||||| |||||||| ||| |||| ||||| ||||||||||| | |||||| | ||||||| |||||||| |||||||| ||||| || ||||| ||||| ||||| |
--------------------------gtcagttctgtgtaagaataagattcttgg--cactgataactatgactgtg--ttatttcaa----tcatcct-agtgtactt---gttctattcttgcttaatttgtggttcttct---------ccagATGACTAGGCTGCTAGACATACTTGAAGATTATCTCATGTTTTGTGGATACCAATATTGTCGCATTGATGGCAATACTGGTGGAGATGATCGAGATGCTT
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 10
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
||||||| ||||| |||| | ||||| | ||||| | | | | ||||| | ||||| || || | | | |||| | || ||| || | | | || | | | || |||||||| ||| |||| ||||| || |||||||| || |||||||| ||||| | |||||||| |||||||||||||| || || || ||||| ||||| |
gtcagtt-ctgtc-agaatgtgattcttgt--------cgctgatgattgtgaatgccttatattttgca-acctgttt-ttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccc------cagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
atttaat putative branch site (score: 4)
ccttctattt putative PPT
tatttaatgttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA