Sequence
atgc intronic sequence ATGC exonic sequence...aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G09310.1 (Glycine max), 3'ss of exon 1
-------aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
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accttgtagaacgaggctttgtcgttgttgttagttatttagttacttgtattggaactttaag--tgttaa--gaaatcttgtgaatgttgttttg--ttgc-cagGTCAAGATGGGGATAAGTTGAGTTTGATCAAGCTTGCTAGCTTAATTGAAGTGTCTGCGAAGAAAGGGACTCGTGATCTCAAACTGCAGAACAAGTTGAT
upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G36110.1 (Glycine max), 3'ss of exon 1
aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgt-gtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
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-tcatctggtagaatgaggttttgtcgttgttgttttttatttagttacttgtgttggaacttgaagtgtaagaaatcttgtgaatgttgttttgttgcagGCCAAGATGGGGATAAGTTGAGTTTGATCAAGCTTGCTAGCTTAATTGAAGTGTCTGCGAAGAAAGGGACTCGTGATCTCAAACTGCAGAACAAGTTAAT
upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G32880.1 (Glycine max), 3'ss of exon 1
------------aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
|| || || | | | | | |||| || |||| || ||| |||| | | ||| | | ||| || | || | || | |||| ||||||||| ||||||| || |||||||| |||||||| ||| | |||||||| || || || |||| || |||||||||||
aagaataacaccaaaaaaacacttaagatactgcatgtaagttttgttccttttggataacttcaatagcttat---tctaaaattgggttttaattttgtagGT------GAACAGAGTGGTGATAAGTTGAGTTTGATAAAACTGGCTAGCTTAATTGAAGTTTCTGCGAAGAAAGGTACACGCGAACTCATACTACAGAACAAGTT---
upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G21580.1 (Glycine max), 3'ss of exon 1
aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT------
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------ggattgaagataaacacttaagatactgcatgtaagttttgttttgttccatttggataactacaatagcttattctaaaattgggttttaattttgtagGTGAAGATAAGTTGAGTTTGATAAAACTGGCTAGCTTGATGGAAGTTTCTGCGAAGAAAGGTACACGCGAGCTCATATTACAGAACAAGTTGATGGACCA
upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G17440.1 (Arabidopsis thaliana), 3'ss of exon 1
aacaattgg-ttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
|||| | | | ||| || | | ||| | | | | | | || |||||| | | || | || ||| | |||||||| | ||| | |||||||||||||| ||||| |||||||| |||||||| |||||| | ||||||| |||| ||| || ||| | ||| ||| | ||||
ttcaatggaatctaagcttgagatttcatgtgtttagaatgtgttccaacggagtctgtttgtctctaattgtagtggaattattattatgtg-tgtgtagGCAATGATGGGGAGAAGTTGAGTCTCATAAAACTTGCTAGTTTGATTGAGGTATCTGCCAAGAAAGCTACTCAAGAGCTAAATTTGCAGCACAGGCTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
ttcttac putative branch site (score: 2)
tattgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaattggttttttcttttcccttttttttttttttttttttcttaccttatcatgcttgtctattgaaatcttgttttccatacaatgggctgtgtagGTCAAGATAGTGAGAAGTTGAGTCTGATAAAGCTTGCTAGCTTGATTGAAGTATCTTCAAAGAAAGGAACTCGAGATCTCAATCTCCAGAACAAGTTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
aacaatt
- - - - - - - - - - ccctttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccataca