Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
gtaagaatagatcaaaagcacctt----ctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
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gtaagagatcctgaaatctattctgcgttttacagaacttgtgactcctt--ctgatgccatcatattaattttcttttgatatggtgctgcagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g41730.1 (Oryza sativa), 3'ss of exon 1
----------------gtaagaatagatcaaaagcaccttctctc------actttttatgatgctttggt-tgaaatttggtttatgactgcattat---gaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
| | ||| ||||| | | ||| | ||| | ||| |||| | || || | |||| || | | |||| || ||| || ||||||||||||||||||| ||||||||||||| |||| || |||||| |||| || ||||| ||||||||| | || || ||||| || |||
gtaagagacactgaagttgattttagccaaaaaggagtgtttcttccgataatgctttttaatgatttgctatggttgttcactattgaccatatactctggttatggttttgcagAGGGCAGGCAGAAAAAGAGTTCAAGGTTGAAGTTGAGTCTATTGGTCATGTTAGGCACAAGAATCTGGTGCGACTTCTAGGTTACTGCATTGAGGGAAGC
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 3
-----gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
| | ||| | ||| | |||| | | | | | || || ||| | | |||| ||||||| |||||| ||||||||||| |||||||| || || || |||||||| |||||||| |||||||| ||| | || || || ||||| || || | || |||||
gtaagctcacaattggctgctagctattgctctgatctctgtttctaacaatcttactcatttactta--attacattgcatgatgggtttgcagGGGGCAGGCAGAAAAGGAGTTCAGAGTGGAGGTCGAGGCTATTGGCCATGTCCGGCATAAGAATTTGGTTCGGCTGTTGGGTTACTGTGTTGAGGGAGTG
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 2
----------------gtaagaatagatcaaaagcac-cttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
| | | | | |||| || | | | | |||| ||| | | | || | ||| ||| | ||||| || |||||||| ||||||||||||||||||||||| || || ||||| ||||||| |||||||| || ||| | || |||||| | || ||| |
gtaagaacccccggagtttatttttaacctaaaggacaccttccatatcggacatgaaatattgttctgctctcagcatacccacaatgtttgatatgtcattgtagGGGCCAAGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCAATTGGACATGTCAGGCATAAGAATCTTGTCCGCCTTCTTGGATATTGCGTGGAGGGAATA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
gtaagaatagatcaaaagcaccttctctcactt-----tttatga------tgctttggttgaaatttggtttatgactgc-attatgaaat----gggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
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gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G031400_T01 (Zea mays), 3'ss of exon 2
gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatg-ggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
|| | || |||| | |||| ||| || | ||| ||| ||| | || || |||| |||||| |||||||| || || ||||| ||||||||||| || || || ||||||||||| || ||||| || || ||| |||| |||||| | ||||| |
-----------gtaagtgtacagtctcgctgagtttac----cttgtaatgta--ttgacttagagctgagatttggtatctggtttgcagGGGGCAGGCAGAGAAGGAATTCAGAGTTGAAGTTGAAGCCATCGGTCATGTTCGGCACAAGAATCTGGTCCGCCTTCTGGGATATTGCGTGGAAGGGATA
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
-----------------------------------------------gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
| | | || ||| | || | ||| | | || ||| | ||| ||||| ||| || ||||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||||| | |||||||||||||| ||| | | || |||||| ||||||| |||
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacct---ttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
-------------------------------gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaa-------------atttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT-
| || | ||| | | ||| ||| | || | || || ||| |||| | ||| || | | ||||| ||| || ||||||||||||| || || ||||| |||||||| ||||| |||||||| |||||||| | ||||||||||||||||| | | || |||||| |||||||||||
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatctta-ttatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 1
--------------------------------gtaagaatagatcaaaagc-accttctctcactttttatga----tg--ctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
||| | || || | |||| |||| || | || | | || || ||| | | | | || || || | || ||| ||||| || || || ||||| |||||||||||||| |||||||||||||||||| | ||||| ||||||| || ||| | || ||||| |||||||||||
gtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacataaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 3
--------------------------------gtaagaatagatca-aaagcaccttctctcac----tttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
|||| | | |||| || | || | | | || || || ||| | | | | || || | | || ||| |||||||| || || ||||| |||||||||||||| |||||||| ||||||||| | ||||| ||||||| || ||| | || ||||| |||||||||||
gtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagaatagatcaaaagcaccttctctcactt---tttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
||||| | | || || | | ||| || | || || | ||| || | | | | || | || ||||||||||| || || || ||| ||||||||||||||||||| || ||||| ||||| || |||||||| | ||| | || ||||||||||| || |||
gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgcttcctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
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gtaagttttcaacttgaata-----tcaaaatgtttgtcaatcttatgtttttgta-acttaataatcctttcccaattttggtctctagAGGGCAAGCTGAGAAGGAATTTCGGGTAGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTTAGGCTTTTAGGATATTGCATAGAGGGAGTTMapped 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|71875365|gb|DT024420.1|DT024420EST: AGACTAATCAATGGAGCTGAGGTAGCAGTGAAGAAGCTTCTTAATAATCT GGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGT
genomic: AGACTAATCAATGGAGCTGAGGTAGCAGTGAAGAAGCTTCTTAATAATCTgtaagaatag ... gggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
attatgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG