Sequence
atgc intronic sequence ATGC exonic sequence...ccatgagcttggtacaagtaagaggctgagaagatgaaattgtaaatgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 16
--------ccatgagcttggtacaagtaagaggctgagaagatgaaattgtaaatgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
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agttatgctctggaaccttctccatctcattagt--agagcatttatttcgaaatgacg--attatactat----ttttgtagcagtaaattgaactttatcttgcagCCTTGCAATTGCTAAAGAAGGTGAACTCTCAATTGGAACCATCGATGACATCCAGAAGCTTCATATCCGTACAATCCCCTTGAATGAACAAGCACGTCGC
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G430027_T01 (Zea mays), 3'ss of exon 4
ccatgagcttggtacaagta-agaggctgagaagatgaaatt-gtaaatgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
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tcatttg--tgtcactggtctagtcattgtggagttacagttagaaagtattaccactgtcttaaggttcctctagttcacccttcttttttccaatgtcagTCTTGCAATTGCTAAAGAGGGTGAGCTTTCAATTGGAACTATTGATGATATCCAGAAGCTTCATATCCGCACAATCCCCCTTAATGAACAAGCACGCCGC
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 16
-ccatgagcttggtacaagtaagaggctgagaagatgaaatt-gtaaatgatattattgggttaag---agactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
|| |||| || || | || | || | |||||||| | || |||| ||| | | | | | | | | |||| ||||||||||| ||||| ||||| ||| |||| || || || |||||||| ||||||||||| |||||| | ||||| ||| || || || || |||
tttgtgtcactggtccagtct-----ttgtggagttatggtttgaaaatgataccactgtcgtaagtttgctctagttcaccccatcttttttctaatgtcacagTCTTGCAATTGCTAAAGAGGGTGAACTTTCAATTGGAACTATCGATGATATACAGAAGCTTCATATCCGCACAATCCCCCTTAATGAACAAGCACGTCGC
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 16
------------ccatgagcttggtacaagtaagaggctgagaa----------gatgaaattgtaaatgatattattgggttaagagac--taactggtggcttttctccccctttctta----------cagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
|| ||| | || ||| | | || ||| | | || ||| | | | | | ||||||| | ||| | | ||| ||| | |||||||| ||||||||||| ||||| || || |||||||||||||| || || ||||| || |||||||| ||||| ||||||||||| || ||
gtatctatgtcattgctagtttgacttactagagttattgacatatccccttgtgctgttcttggatcttgtacaatttaatataaaatcctttactggtgatggtactcatctacttttaataacttaaacagTTTGGCAATTGCAAAAGAAGGTGAGCTTACTATTGGCACCATTGATGATATACAAAAACTTCATATTCGCTCTATTCCACTGGGGGAGCATGCACGACGT
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA12G08330.1 (Glycine max), 3'ss of exon 3
------------ccatgagcttggtacaagtaagaggctgagaa----------gatgaaattgtaaatgatattattgg--gttaagagactaactggtggcttttctccccctttctta----------cagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
| || ||| | || | | | | | || ||| | | || ||| || || | ||||||| ||| | | ||| ||| | |||||||| ||||||||||| ||||| || || || ||||||||||| || || ||||| || |||||||| || || |||||||| || || ||
gtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttattgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacagTTTGGCAATTGCAAAAGAAGGTGAGCTTACTATTGGCACTATTGATGATATACAAAAACTTCATATTCGCTCTATTCCGCTGGGGGAGCACGCACGACGT
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 16
------------ccatgagcttggtacaagtaagaggctgagaa----------gatgaaattgtaaatgatattattgggttaagagacta--actggtggcttttctccccctttctta----------cagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
| || ||| | || | | | | | || ||| | | || ||| | | | || ||||||| ||| | | ||| ||| | |||||||| ||||||||||| ||||| || || || ||||||||||| || || ||||| || |||||||| || || |||||||| || || ||
gtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacagTTTGGCAATTGCAAAAGAAGGTGAGCTTACTATTGGCACTATTGATGATATACAAAAACTTCATATTCGCTCTATTCCGCTGGGGGAGCACGCACGACGT
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT4G05420.2 (Arabidopsis thaliana), 3'ss of exon 15
-------ccatgagcttggtacaagtaagaggctgagaagatgaaattgtaaatgatattattgggttaagagact----aactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
| || | | || | |||| || ||| | ||| || | |||| | || || | || | || ||| ||| | |||||||||| |||||||| ||||| || || |||||||||||||| |||||||||||||| || |||| || ||||| ||||||||||| ||
gtacactaaacatcctctctttttcttgtcggtttttgctttgaatttctaattcctat-atgaagctaagtggctctgaaatctgattctctgttctatcttatgagcagTTTAGCAATTGCCAGGGAAGGTGAACTTACGATTGGAACCATTGATGATATTCAGAAGCTTCACATACGTACTATTCCTCTTGGAGAGCATGCTCGTCGA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 16
ccatgagcttggtacaagtaagaggctgagaagatgaaattgtaaatgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
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-----------gta-aactatatttttcctctgttattttcctttgggatcaaagtacattgtggtgaaatctggctctacttctcttccattg--gcagTCTAGCAATTGCAAGGGAGGGCGAACTTACAATTGGTACCATCGATGACATTCAGAAGCTTCACATACGCACCATTCCCATTGGAGAGCATGCTCGTCGGMapped 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|161718555|gb|FC065380.1|FC065380EST: AAAGAAGTCAGCCACATGTGCCCTTTCAATTCTGCTGCTTTTCCAGATAG CCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATAT
genomic: AAAGAAGTCAGCCACATGTGCCCTTTCAATTCTGCTGCTTTTCCAGATAGgtaccttttg ... tttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
gactaac putative branch site (score: 1)
tggcttttctccccct putative PPT
attatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatgagcttggtacaagtaagaggctgagaagatgaaattgtaaatgatattattgggttaagagactaactggtggcttttctccccctttcttacagCCTTGCAATTGCCAAAGAAGGTGATCTTACAATCGGTACCATTGATGATATCCAGAAGCTTCACATCCGCTCTATCCCACTTGGGGAGCATGCTCGCCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
-catgagc
- - - - - - - -aagtaaga
- - - - - - - - - - - - - -gagaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taagaga