Sequence
atgc intronic sequence ATGC exonic sequencegtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 18
gtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttatttt--cagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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--------------------gtgagtcttt-----tttaactgt-----tggcgatctt----attatttgtatttttcttttttgtgtcagtcc---ctaattgttggttg--ggctgattgctattgtgtatttttgggcagCATGAGGAAAGCGCGATTGAAGAGCGTGCTAGGGATTACAATGCAAACTGGATGACTGCAGTTGAGATGCTTGATGATGAAGTCTACGTTGGGGCGGAGA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G430027_T01 (Zea mays), 3'ss of exon 6
gtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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----------------gtgggtgacgggttttttaactgtttgcttgactcacattgcatt-atctgtaaaattattgtgtccgtct-------ttgttgggctgattgctaatgttt------tccctgttgag----cagCATGAGGAAAGCGCGATCGAAGAGCGTGCTAGGGATTACAATGCAAACTGGATGACTGCAGTTGAGATGCTTGATGATGAAGTCTATGTTGGGGCGGAGA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 18
gtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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gtaaattttaaactgttgtgacactagtttctgtctggttttgttaaatttcaactgttcttctgcttagtgttttggatgaataactgatttttgtatatataatgagtacattcttttg-gaatgataaattgttcttttattgatagCATGAAGAAGGTGCTATTGAGGAAAGAGCTCGTGACTACAATGCAAATTGGATGTCAGCCGTTGAAATCGTTGATGATGACATATACCTAGGTGCAGAAA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 18
gtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagttaaaagagtgttg-tgtttgtttgttactcttatcgtcttgttaatggatgtctgattggt---cctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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gtaaattttaaactgttgtgacactagtttctgtctggttttgttaaatttcaactgttgtgctgcttatcgttttggatgaataactgattttttgtatatataatgagtacaccatgttcttttggaatgataagttgttccttattgatagCATGAAGAAGGTGCTATTGAGGAAAGAGCTCGTGACTACAATGCAAATTGGATGTCAGCCGTTGAAATTGTTGATGATGACATATATCTAGGTGCAGAAA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA12G08330.1 (Glycine max), 3'ss of exon 6
gtaagat---gactaatcttcaagtaatccct-tgtccttttggcag----caagtatggcgttccctggagtt--aaaagagtgttgtgtttgtttgt-tactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
|||| | ||| | | | || || || | | ||||| | ||| | | | | | | ||| | || | ||| | | | || | | || || | ||| |||| || |||||| ||||||| |||||||| ||||| || |||| ||||||||||||||||||||||||||||| ||||| || ||||||||||||| ||||| |
gtaaattttaaactgttgtgacactagtctctgtctggttttgttaaatttcaactgttcttctgcttagtgttttggatgaataactgatttttgtatatataatgagtacattcttttggaatgataaattg-----ttctttattgatagCATGAAGAAGGTGCTATTGAGGAAAGAGCTCGTGACTACAATGCAAATTGGATGTCAGCCGTTGAAATCGTTGATGATGACATATACCTAG---------
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 18
gtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttca-gCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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----------------------------------------------gtataacttctagacgaaatttgtgtgtttaaaaactgatc--tactatgttcat-ttggtattg--tttctgatggcttattcttgaatgtaaaagCACGAGGAAGGTGCAATTGAGGAGCGGGCTCGGGATTACAATGCAAATTGGATGTCAGCGGTTGAGATACTCGATGATGATATTTACCTCGGTGCTGAGA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 18
gtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
|||| | | | | | | ||| || ||| | | | || | || ||| || |||| |||| | || | || | || ||||| || | ||| ||| |||| ||||||||||| || || ||| |||| || ||||| |||||||| |||||| | || |||||||| || |||||||||| ||||| ||| |||| |
gtaaaacgttttggatacga--aattgtttttccgtctttatatgaataca----tgccaaatctta---gattgttatgttcacaagaa---ctcaccggactctt---------ttgatta-tctgtgtttgttttaaagCACGAGGAAGGTGCGATCGAGGAGAGAGCTCGGGACTATAATGCAAACTGGATGACGGCAGTTGAGATACTCAATGATGACATCTACCTCGGTACTGATA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: PP1S458_4V6.1 (Physcomitrella patens), 3'ss of exon 18
-------------------gtaagatgactaatcttcaagtaatccctt---gtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgt-------gtttgtttgttactct-tatcgtcttgttaatgg----atgtctgattggtcctttttttatttt-cagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
| || | | | |||| | | | |||||||| | || | || || | || | || | ||| ||| | | ||||| || | | || | || || | ||| | |||| ||| || ||||| || || ||| |||| || ||||||||||| ||||||||| |||| ||||||||| | ||||| |||| ||||| || || || |
gttagtacttcccaaactactggaatatatcagcacaaagttgtttcatttggtccttttcctctagactaagctctttcccccatctactttcatcttttttgacgagttcaaggattatgaaatgaggaattgtttatcgcctgaagtgatgatattctttactgtatctgacagCCTGAAGAGGGTGCAATCGAGGAGAGAGCTCGAGACTACAATGCTAATTGGATGACAGCCGTTGAGATTTTGGATGACGACACATACCTGGGAGCAGAAA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: PP1S203_55V6.1 (Physcomitrella patens), 3'ss of exon 18
---------------------------------gtaagatgactaatcttcaagtaat--cccttgt-----ccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttatttt-cagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
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gtttgtagtttacaaattgctgattttatcaccataagattattacatttcatccttttaccctggtatgggttctttgcttccgtcttgattgctttccatcttttttaatcagttgaagaggtaagaagtaatagtaggttgtttaatgcttgaagaaatgacctgcattgagtccggcagCCTGAAGAGGGAGCGATTGAGGAGAGAGCTCGAGACTACAATGCCAACTGGATGACAGCGGTTGAGATTCTGGATGACGACACTTATCTAGGGGCGGAAAMapped 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|161721380|gb|FC071058.1|FC071058EST: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAG CATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
genomic: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgac ... ttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
EST:
gi|110698228|gb|EE075535.1|EE075535EST: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAG CATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
genomic: TCATTGTTGTTGGTGATCTGATGAAATCAATCTCTTTGTTAATTTATAAGgtaagatgac ... ttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
tcctttttttattttc CT-rich tract
tttttttattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatgactaatcttcaagtaatcccttgtccttttggcagcaagtatggcgttccctggagttaaaagagtgttgtgtttgtttgttactcttatcgtcttgttaatggatgtctgattggtcctttttttattttcagCATGAGGAAGGTGCCATTGAAGAGCGAGCCCGTGACTACAATGCAAATTGGATGTCAGCTGTTGAGATTCTTGATGATGACATTTACCTTGGTGCTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT