Sequence
atgc intronic sequence ATGC exonic sequence...gtagatattaattttccagtgcatgtgatggaagattgagttattttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g35720.1 (Oryza sativa), 3'ss of exon 8
gtagatattaattttccagtgcatgtgatggaagattg-agttattttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGT---GGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
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------------------------gtaatcgaaaattttagataagaatatttccctcaca-tgaagtttcattgtgcttctaaatctaaaa-tgttgaagGGTGTTGGCGGTGGTCAACTAGAAGTGCTTGGTGATGACTTTTCCAGGTGGATGCTGTTGGAGAGAGTCCTGTTTACATTAGATGGTCTTGAATGTAATA---
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G09710.1 (Glycine max), 3'ss of exon 8
gtagatattaattttccagtgcatgtgatgga--agattgagttattttctttgtg-ttcttggttgttttttgctgaga------gtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
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--------ttatggaagaaaaca-gtgatgaactacttttacatactttcggcatgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G02850.1 (Glycine max), 3'ss of exon 8
gtagatattaattttccagtgcatgtgatgga--agattgagttattttctttgtg-ttcttggttgttttttgctgaga------gtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
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--------ttatggaagaaaaca-gtgatgaactacttttacatactttcgacatgattcacaactgttacaagcttaaacaaaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G38410.1 (Glycine max), 3'ss of exon 4
gtagatattaattttccagtgcatgtgatgga--agattgagttattttctttgtg-ttcttggttgttttttgctgaga------gtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
| || | || | |||| | | || | || |||| || ||| |||| ||| | | ||| | || || | | |||| |||| | |||||||| |||||||| || |||||||||||||| |||| ||||||||||||||||||||||||||| |||||||||| ||||
--------ttatggaagaaaaca-gagatgaactacttttacatactttcggcatgattcacaactgttacaagcttaaacaaaatatttacaatttttcttgtgacagGGCAGCCCTGCGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGTTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G42590.1 (Glycine max), 3'ss of exon 1
-----gtagatattaattttccagtgcatgtgatggaagattgagttattttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
| ||| | | | | | | | ||| | | ||| | || |||| | | | | | ||| | || || | | ||| |||| | ||||| || |||||||| ||| || |||||||||||||||| ||||||||||||||||||||||||||| | |||||||| ||||
ttatggaagaaaacactgatgaactac-tgttacatacttttggcatgattcacaactgttacaagct----taaacaaaatatttacaatttttcttgtgatagGACAGCCCTCGGCAACCGCAGGATTTGGGGAGAAATATTCCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATCGAATGTAACAAAA
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G09670.1 (Glycine max), 3'ss of exon 9
gtagatattaattttccagtgcatgtgatgga--agattgagttattttctttgtg-ttcttggttgttttttgctgaga------gtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA--
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--------ttatggaagaaaaca-gtgatgaactacttttacatactttcggcatgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAG--TGAGATTTACCTTAGATGGTATTGAATGTAACAAAATT
upper sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G11720.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagatattaattttccagtgcatgtgatggaagattgagttattttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGTGGCC----CAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
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------------------------gtaactgcttatccatttgaactcttt------taacttgcaccgcgctgtaagactaaatgaatcggttgaaaaagGCGGCTGAAGCGGGACAACCAGGGAGCTTAGGCGCAAATTACTCAATGTGGATGCTGCTTGAGAGAGTGAGATTTACATTGGATGGCTTAGAATGTAATA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
tttccttcttctccta CT-rich tract
ttgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatattaattttccagtgcatgtgatggaagattgagttattttctttgtgttcttggttgttttttgctgagagtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - -catgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccttct