Sequence
atgc intronic sequence ATGC exonic sequencegttattggcatttttagttttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g16110.1 (Oryza sativa), 3'ss of exon 2
-------gttattg--gcatttttagttttc--tcttgttctattttactcatgctgaaaactgaaattcttcttttggt-ctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
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gtacaattttaatgcaacatcttttcctttcagtattttttttggtcaactgaggtgatcatatttatatttcatgtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATATTCTCAGCTCCAAACTATTGTGGTGAATTTGATAATGCAGGTGCAATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G160237_T02 (Zea mays), 3'ss of exon 3
--------------gttattggcatttttagttttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtct-------------agGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
||| || || | ||| |||| || | | | | | ||| ||| |||| | || | | | | ||||||| |||||||| |||||||| ||||| || || || ||||| ||| ||||||| || ||||| || |||||||||||||||||||||||||||||||
gtaccgccttagcatttagtgcagcttctgttttgatctttttatttcacagtta-actggaaattgaaggtgtttatattgcatgcgatgtgatgtcagGTTGTCGAGGATGGGTATGAATTTTTTGCTGACAGACAGCTTGTCACCATATTCTCGGCCCCCAATTATTGTGGTGAATTTGATAATGCTGGTGCAATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G41890.2 (Glycine max), 3'ss of exon 2
------------------------gttatt-ggcatttttagttttc--tcttgttctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
| ||| || | | |||| | ||| | || | ||| | ||||| ||| | ||| | |||||||| |||||||| |||||||||||||| ||||||||||||||||| |||| |||||||| ||||| |||||||||||||| ||||||||||| ||||
gtcactcttggtttttttacaatactcattcagcttctctagtaaaaaggttaaacttatgatgctt-tactggacactgacattataacttttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGCAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G07080.1 (Glycine max), 3'ss of exon 2
-------------gttattggcatttttagttttctcttgt-------tctattttac----tcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
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gtcactgtttttttttacaatactcattcagtttctataataaaaaggttaagcgtacgatgctttactggacactgacattataaattttatgtagGTTGTAGAGGATGGGTATGAATTCTTTGCTGATAGGAAACTTGTTACGATATTTTCAGCTCCAAACTATTGTGGTGAATTTGACAATGCTGGTGCGATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G39840.1 (Arabidopsis thaliana), 3'ss of exon 2
----gttattggcatttttagttttctcttgtt-ctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
| || || | | | | | | | || ||| | ||| | | || || | | |||| |||| ||||||||||| ||||| |||||||| ||||| |||||||| || || || |||||||| |||||||||||||||||||||||||||||||| ||||
gtagatatttttcaatcatgtctctttgatactactgcttttgtgatgttaacaagggagttggattttttatggcagGTCGTGGAGGATGGGTATGAGTTCTTTGCTGATAGACAACTTGTGACGGTGTTTTCAGCTCCTAACTACTGTGGTGAATTTGATAATGCTGGTGCGATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S39_109V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------gttattggca----tttttagttttctcttgttctattttac-----tcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
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tgaccagttgtcttttcatgctgttggtagatctcttcagctgctgtaggttagattctttgtacataatgctgatctgtgcgggatgtcccatg-cacagGTTGTGGAGGATGGTTACGAGTTTTTCGCTAAGCGCCAACTGGTCACTATCTTCTCTGCACCAAATTATTGTGGTGAATTTGATAATGCGGGTGCAATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S283_48V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------gttattggcatttttagttttctcttgttctattttactcatgctgaa-aactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
|| | | | ||| | | | || || || | || ||| | | | |||| || |||||||| ||||||||||| ||| | | || || ||||| | ||||| || || || ||||||||||||||||||||||| ||||| ||||
attgattaatttacttttttcgttgggtagggatcgtagatggttaaaccgtaatttagagatctgataattaatgacttgcgtgggattccgcatgcagGTAGTTGAGGATGGTTATGAATTCTTCGCCAAGCGCCAGCTGGTTACTATTTTCTCTGCACCGAATTACTGTGGTGAATTTGATAATGCGGGTGCCATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S97_286V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------gttattggcatttttagttttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtct-------agGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
| |||| ||| | | | | | || || || || | | | || ||| | | | | |||| || |||||||| |||||||| || || | | ||||| |||||| | || || ||||| || || |||||||||||||||||||| ||||||||||
gacgaatttgaacctccgatgcgattgacatgtctcttccaccaccatacttttatattctttgtatactatgctgatctgtgtgggatgttacatacagGTAGTAGAGGATGGTTATGAATTTTTCGCTAAGCGCCAACTGGTTACCATTTTTTCTGCTCCAAATTATTGTGGTGAATTTGATAATGCGGGTGCAATGA
upper sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S22_185V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------gttattggcatttttagttttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
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gattttacaaattgtacaatgtgattcagtctcctaatgggtagaattaccttattcctggtgtgtttcaa--gtactgacatgtgtgaatgtcac----atgcagGTAGTGGAGGATGGTTATGAGTTTTTTGCTAAACGCCAGCTGGTCACTATTTTCTCTGCACCAAATTACTGTGGTGAATTTGATAATGCGGGTGCGATGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|351026429|gb|FQ428441.1|FQ428441EST: CAGAATTCTTGACAAAACATGATTTAGACCTTGTTTGTCGTGCCCATCAG GTTGTGGAGGATGGATATGAATTCTT
genomic: CAGAATTCTTGACAAAACATGATTTAGACCTTGTTTGTCGTGCCCATCAGgttattggca ... tttggtctagGTTGTGGAGGATGGATATGAATTCTT
EST:
gi|161712905|gb|FC062378.1|FC062378EST: CAGAATTCTTGACAAAACATGATTTAGACCTTGTTTGTCGTGCCCATCAG GTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTA
genomic: CAGAATTCTTGACAAAACATGATTTAGACCTTGTTTGTCGTGCCCATCAGgttattggca ... tttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
ttcttcttttggtct CT-rich tract
ttctatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattggcatttttagttttctcttgttctattttactcatgctgaaaactgaaattcttcttttggtctagGTTGTGGAGGATGGATATGAATTCTTTGCCGATAGGCAACTTGTTACCGTATTCTCAGCTCCCAACTACTGTGGTGAATTTGATAATGCTGGTGCAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG