Sequence
atgc intronic sequence ATGC exonic sequence...ttgtccctggtattagttgtcatgtttgaattttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G115755_T01 (Zea mays), 3'ss of exon 2
-----ttgtcc-ctggtattagttgtc----atgtt---tgaattttaagtgttgtgatgatgtct---atgggaagaaatacaa-cgtgcttaatgtacttctattta-atttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
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gtatgttatcagctagcataagatttctcaaatgtcccatacattttta-tatcacgatttaacttgacattctcacatgtacaatcatgagtcattgtttgctccttataattacagGGCTCCGGAACTACTATTAGGAGCAAAGGAGTATTCGACTGCTATCGATATGTGGTCATTAGGTTGCATAATGGCAGAACTCTTGTCAAAAGAGCCACTC
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G10810.1 (Glycine max), 3'ss of exon 1
ttgtccctggtattagttgtcatgtttgaattt-taagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
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-tcttgttactttaggttcatatataagtacttatccatcctttttttatgcagcatcgatgcttttacatgagtgtaatggttgtctatatatttttcagGGCACCTGAACTTCTTCTGGGGGCAAAACAGTATTCAACAGCCATTGACATGTGGTCTTTAGGTTGTATAATGGCTGAGCTATTGTCTAAGGAACCACTG
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G27820.1 (Glycine max), 3'ss of exon 4
-ttgtccctggtattagttgtcatgtttgaattttaagtgttgtgatgatgtctatgggaagaaatacaa---cgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
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gttctacttgccttcattttacctgttt--atcataatgtctttgactaaattctcttgcagtgatgtgatcatttacctaatggctgtctatatgttt--cagGGCACCTGAACTTCTTCTGGGGGCAAAACAGTATTCAACAGCCATTGACATGTGGTCTTTAGGTTGTATAATGGCTGAGCTATTGTCTAAGGAGCCACTA
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G01230.1 (Glycine max), 3'ss of exon 3
ttgtccctggtattagttgtcatgtttgaa--ttttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
||| | | | ||| | || || ||| | | | | | || | |||| | | | || ||||| ||||||| ||| |||||| || |||||| | | || |||| || || |||||||| |||||||||||||| | ||||| ||||||||||| || || || ||||||||||||
ttgactttatt-ttactatgtattttagaatgtctcagacatcattcccttg-caatggaagagatcatttagttaataatggttatctatttgtttttcagGGCTCCTGAACTTCTTCTCGGGACAAAACAGTATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCACTG
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G37270.1 (Glycine max), 3'ss of exon 1
-ttgtccctggtattagttgtcatgtttgaat--tttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
| | | || | | | ||| |||| | | | || | |||| | | | || ||||| ||||||| ||| |||||| || |||||| | |||| |||| ||||| |||||||| |||||||||||||| | ||||| ||||||||||| || || || |||||||| ||
actttattttactttgtatttta-gttagaatgtctcagacaccattcccttg-caatggaagagatcatttagttagtaatggttatctatttgtttt-cagGGCTCCTGAACTTCTTCTGGGGACAAAACAATATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCTCTA
upper sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------ttgtccctggtattagttgtcatgtttgaattttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
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tccttgacttgttttgttccttgtgttgactctcccttcttg-ttttagcaataatcac--ttcctccgggaccaagcccaacg-----actgcatttgtttttc-----cagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTGMapped 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|30134929|gb|CB920267.1|CB920267EST: GGGAGCCCTTTGAAACCATATACTCATTTGGTGGTTACTCTATGGTACAG GGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACAT
genomic: GGGAGCCCTTTGAAACCATATACTCATTTGGTGGTTACTCTATGGTACAGgtgagctgga ... taatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
atttaat putative branch site (score: 4)
cttctattt CT-rich tract
ttaatgtacttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtccctggtattagttgtcatgtttgaattttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- -tccctgg
- - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacgtgc