Sequence
atgc intronic sequence ATGC exonic sequence...acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 9
acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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------gtactgtgctctttttacctttacattca---ttcagtcataagtatttatgagcgtgc--tgatcgattggctcaccaatgatg-tgaaatagGTTTGTGATTTTGGACTTTCACGCTTGAAGCACAGTACATTCTTATCATCCAAATCCACTGCTGGAACT
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g29540.1 (Oryza sativa), 3'ss of exon 9
acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgac-tttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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-----------------------------------gtatctatctgctttcgagaaccaaagcctgaaagcttgttgttagctaacaaattacatttacagGTCTGTGATTTTGGACTTTCACGTTTGAAGCACGGTACATTTTTGTCATCCAAATCCACTGCAGGGACT
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G175563_T01 (Zea mays), 3'ss of exon 9
acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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----------------------------gtgtgtgatcttgc-ccacgattaatatttggccaccaataatcattcacatcaatatatgcaatataacagGTTTGTGACTTTGGACTTTCGCGGTTGAAGCACAGTACATTTTTGTCATCCAAATCTACAGCTGGAACA
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 10
---acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactt-tgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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tttttctaaacat--atttcttgaattatgtatacataa-attcctgagctatttta-tataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
---acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataattta-tgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG-------------------------------
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tttttctaaacat--atttcttgaattatgtatacataa-attcctgagctatttta-tataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 10
--acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactt-tgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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tgaacatatttcttgaattatgtatacatcaatttctgagctgtgt-gcatttt--atataatcttggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACTTTTTTGTCATCCAAGTCAACTGCTGGAACG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 9
---acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
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gtaggaagacttttttcttaagttgtccaacgaatatacttgtttactctaatggtaaataaatagattttgtttttatc--------ttactaaccttgtagGTCGGTGATTTTGGGTTGTCTCGCTTAAAGCACAATACTTTTTTATCCTCCAAATCAACTGCTGGAACGMapped 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|30303225|gb|CB980019.1|CB980019EST: GGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG GTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCC
genomic: GGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAGgtatggcatt ... gactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
gtttgac putative branch site (score: 4)
ataatttatgacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataatttatgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- ccaagta
- - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - -ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - accataa