Sequence
atgc intronic sequence ATGC exonic sequence...gattgcttgcatttgtctatttaatttaagcaatctgctatttctcatgcattattctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 3
------gattgcttgcatttgtctatttaatttaagcaatctgctatttctcatgcattattctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
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taatctaacggatcaggagtctcgcttgtacgcttgcacgtaaggccccattgcacagtagtcatcgcctattttaattgtttattgtcatct------atttcagTGACAAAGGTGAAATGTGTGCGATGAAGGAGGTTACTCTTTTCTCAGATGATCCTAAATCAAAAGAAAGTGCAAAACAGCTGTGCCAG
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 5
gattgcttgcatttgtctatttaatttaagcaatctgctatttct-catgcattattctttataattctgactttttttttttcttttg---cttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
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--ctg-ttgtttttgtct-caaggtgcgggttatctatcattcgtgcattaaatagtttttacttttacatctgatttgatttagtttaacttctgatccatagTGAAAGTGGTGAGATGTGTGCAATGAAGGAGGTAACTCTTTTTTCAGATGATGCTAAATCAAGGGAAAGTGCTCAACAACTTGGCCAA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 2
gattgcttgcatttgtctatttaatt-taagcaatctgctatttct-catgcattattctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
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ttgttctgtcgtttgtgtctcaaggtgtgggctatctatcatttgtgcattaaatagtttcttcttttacatctgatttagtttaactt--ctgatccatagTGAAAGTGGTGAGATGTGTGCAATGAAGGAGGTAACTCTTTTTTCAGATGATGCTAAATCAAGGGAAAGTGCTCAACAACTTGGCCAA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G01880.1 (Glycine max), 3'ss of exon 2
-gattgcttgcatttgtctatttaatttaagcaatctgctatttc-tcatgcattatt--ctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
||||| | ||| ||| |||| | | | | | | ||| | | || ||| ||||| |||||| || ||| || | | || ||| ||| |||| ||||||||||||||||||||||| || | ||||| |||||||| || |||| ||||||||| ||||| || ||||||
ttcatgctt-tgtgtgtggattatctttatgttttttttttctgcatcaagtccttttaacttcttaattgtgacttagttcaa--cttctgat-gatctatagAGAATGTGGTGAGATGTGTGCAATGAAGGAGGTAACCCTTTTTTCTGATGATGCTAAATCAAGGGAAAGTGCGCAGCAACTTGGCCAA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 2
gattgcttgcatttgtctatttaatttaagcaatctgctatttctcatgcattat-tctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
|| || || ||| || | | | | |||| |||| | | ||| | |||| | | | || | | ||||||||||||||||||||||| ||||| |||||||| ||| ||||||||| | ||||||| ||| |||||||| || |||| |||
-ataaactgatttgttctcttcacaaaatattgaataggagaactcaaatgttatatttctatgtcacccctgttttgatcggttatgttttcttcctcagTGAAAGTGGGGAGATGTGTGCCATGAAAGAGGTTACTCTATGCTCAGATGATCCTAAGTCAAGGGAGAGTGCACAACAATTGGGGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcattattctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
ttctgac putative branch site (score: 2)
ttctgacttttttttt CT-rich tract
attattctttataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattgcttgcatttgtctatttaatttaagcaatctgctatttctcatgcattattctttataattctgactttttttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - gcttgca
- - - - - - - - - - - - -ttaagca
- - - - - - - - - - - - - - - - - ctgctat
- - - - - - - - - - - - - - - - - - - - - -ctcatgc