Sequence
atgc intronic sequence ATGC exonic sequence...gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g43400.4 (Oryza sativa), 3'ss of exon 8
-----gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgct---agttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
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tggatgaactaattttgaattccttttgcgcgtcgcaattcaactctttgattgcatt-attaccatccaatttagtctaagctatatgttcatgt-------tgcagTAAGGGAAGAAATGGCCATATCCCCTACAGAGATTCAAAGCTGACTCGTATATTACAGTCTTCCTTGGGAGGCAATGCAAGAACTGCTATTATCTGCACA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G015395_T01 (Zea mays), 3'ss of exon 7
--------------------------------------gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgctagt-tatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
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gtctgttaaggtgctctagccatctgtctttggcggataaaaccacaattccaatcatattagtgctacttttgcaatttgt--cttgagcca-aatgatacaacaagtgaatctggacaactcatttct--gatgcagCAAGGGAAGAAATGGGCATATCCCTTACAGAGATTCAAAGCTCACTCGCATATTGCAGTCATCTTTAGGCGGCAACGCGAGAACTGCTATTATCTGCACA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G338928_T02 (Zea mays), 3'ss of exon 4
--------------------------------------gaatttccctttcatttcttagtggttgtatagttgaa----ttctgcagct------gaaaggataattatcaaatctgctagt-tatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
|| | | || || || | || || ||| | |||| | | | | | |||| | | | | || | | || | || |||||||||| ||||||| ||| ||||| ||||| ||||||||||| | || |||||||||||||| || || || |||||||| | ||||||||| || || ||
gtgcgttaaggtggtctagtcatctgtctttagcagagaaaaccacaatccaaatcatattagtgttacttttgcaatttttctcgaacccccttcaacattacaatttttggacgcctaaatctagacagttcattctt--gatgcagCAAGGGAAGAAATGGGCATATCCCTTACAGAGATTCAAAGCTCACTCGCATATTGCAGTCATCTTTGGGCGGCAATGCGAGAACTGCTATTATCTGCACG
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggat---aattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
|| | | || || | ||| ||| ||| | | | |||| | | | ||| | | | | | || |||| |||||||| || |||| |||||||||||||| ||||||||||| |||||||||||||||||||||| |||||||||||||| | |||||||||||| || ||
-catattgggaataatttata-tagttttatt-ttggaaaggggggttgaatatttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G37340.1 (Glycine max), 3'ss of exon 7
gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaa---ggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
|| | | ||| | || ||||||| ||| || | | | ||| || | | | | ||| | || ||| | |||||||| || |||| |||||||||||||| ||||||||||| |||||||||||||||||||||| ||||| |||||||| | |||||||||||| || ||
--atattcgacatattgggaataatttatatagttttattttggaaaggggggttgaatatttctttcactttcatcttaaaaaaaataaaatt-gcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGGGGCAATGCTAGAACTGCTATCATCTGCACC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G24250.1 (Glycine max), 3'ss of exon 8
-----gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
||||| | || | | ||| |||| | | | || || || | || | | | || ||| ||||| |||| || || |||| |||||||||||||| ||||||||||| ||||||||||| |||||||||| |||| ||||||||| |||||||| ||||| || ||
ttcataaatttactgaatgcgtcgatataatca-atatttga-tatagttttgggaaatattttttttcgattttatctaaaaatgatta---atttgatggcagTAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATACTGCAGTCCTCATTAGCAGGCAATGCTAAAACTGCAATCATCTGCACC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 8
gaatttccctttcattt---cttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
| | | | || | || || | | | | | | || | | || | || | | | |||||| ||||| ||||||| || |||| ||||||| |||||| ||||||||||| ||||||||||| ||||||| || |||| ||||||||| |||||||| ||||| || ||
ggacacacgcgagacttggccgtaaaaattatcaatatttgatatacttttgggaaataatttttttgattttatctaaaaataatta---atttgatggcagCAAGGGGAGAAATGGACATGTTCCTTTCAGAGATTCAAAGCTAACCCGCATACTGCAGTCTTCATTAGCAGGCAATGCTAAAACTGCAATCATCTGCACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgaaaggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
ataattatcaaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggataattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT
- - - ccctttc
- - - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - -tctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - -aggataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctag