Sequence
atgc intronic sequence ATGC exonic sequence...gcttcccgtgtcattgtcaagggtcatcatattttcctgtgattttttcagaacatatgccagcaacctgtccatgtgctctcttctatcatttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 6
gcttcccgtgtcattgtcaagggtcatcatattttcctgtgattttttcagaacatatgccagcaacc-tgtcc-atgtgctctcttctatc-atttatgc-agGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
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gatttcaagctgatttc---gtactat-gtccgttctcaatatttcgtcagcacctttttctttaacaatatctgatgtttagctatttatctgtctgtaccagATCACTGGTTGCAAACTTATCAGCAGCAAACTGCTACAAATCTGAGCATCTGAAGAAACCGGAGAACTGGGCACTAG
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G089767_T01 (Zea mays), 3'ss of exon 4
gcttcccgtgtcattgtcaagggtcatcatattttcctgtgattttttcagaacatatgccagcaacctgtccatgtgctctcttctatcatttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
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----------------------gtatgcttgctacagtatcttcatttcaacaagcatgtcttaattttaatcagttgc---cttaaaac-tgtaaccagGTCACTTATTGCTAACTTGTCTGCGGCAAACTGCTATAAGTCTGAACATCTGAAGAAACCTGAGAATTGGGCACTTG
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G06580.1 (Glycine max), 3'ss of exon 6
------------------------------------gcttcccgtgt----cattgtcaaggg----tcatcatattttcctgtg----attttttcag---aacata-----tgccagcaacctgtccatgtgctctcttctat-------cattt--atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
||| | | || | || | | || | |||| | | | || |||| |||||| || |||| || || ||||||| ||| | ||| ||||| || ||||||||||||| ||||||||||||||||||||||| ||||||| ||| || ||||| |||||| |||
gtcagacgatcaagctttccttgattgttttattctacttattatataactcaataataatgatattttatgctgtttttttatagtatacttcttcaacttaacataatacttgattgcaagacaattatttgaagccttctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G20780.1 (Glycine max), 3'ss of exon 6
------------------------------------gcttcccgtgtca-ttgtcaagggtca----tcatattttcctgtgat-------tttttcag---aacata-----tgccagcaacctgtccatgtgctctcttctat-------cattt--atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
||| | | | | || | | | ||| || | | || || ||||| |||||| || |||| || || |||||||| ||| | || ||||| || ||||||||||||| |||||||||||||| |||||||| ||||||| ||| || ||||| |||||| |||
gtcagatgatcaaactttccttgactgttttattctacttattatatgactcaataataattatattttatacttctttttaatagtatacttcttcagcttaacataatacttgattgcaaagcaattatttgaagtcttctatttgattgcatctaaatatagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTATAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G36630.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------gcttcccgtgtcattgtcaagggtcat-catattttcctg--tgattttttcagaac-atatgccagcaacctg--tccatgtgctctcttctatcatttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
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gtaagacgatcaaattttcacctgtttctttgtttgtctgcgtgtctgtttttttactaattgaagttattttttatgctgtttctaaataaagtatataccttccagcctgatgtttacttgactgcaaaacaattgtttgaagccttacatttgattgcatc-tgaatacagGTCTCTTGTGGCGAACTTAGCAGCTGCCAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG
upper sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G33910.3 (Glycine max), 3'ss of exon 3
----------------------------------------------gcttcccgtgtcattgtcaagggtcat-catattttcctgtgattttttcagaacatatgccagcaacctgtccatgtgctctcttctatcattt----atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
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gtaagatgatcaaatttttgcgtgtttttttgtctgcctgtgtgtctgtttttatgctgtttccaaatgaagtatatgccctccagcctgatctttacttgattgtaaaacaattttttgaagtcttacatttgattgcatccaaatgcagGTCTCTTGTGGCGAACTTAGCAGCTGCAAATTGCTACAAATCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGMapped 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|110425226|gb|EC991608.1|EC991608EST: GAGACTGCACCAACTGGTACATGTGCAGTTTGCGTTGTT-GTGGCGAGAG GTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTT
genomic: GAGACTGCACCAACTGGTACATGTGCAGTTTGCGTTGTTGGTGGCGAGAGgtgagttcct ... atttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagaacatatgccagcaacctgtccatgtgctctcttctatcatttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
ctctcttctatcattt CT-rich tract
tatcatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttcccgtgtcattgtcaagggtcatcatattttcctgtgattttttcagaacatatgccagcaacctgtccatgtgctctcttctatcatttatgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
gcttccc
- - - - - -cattgtc
- - - - - - - - - - - gtcatca
- - - - - - - - - - - - - - - - -ttcctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -catatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgtcc