Sequence
atgc intronic sequence ATGC exonic sequence...aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g56170.1 (Oryza sativa), 3'ss of exon 2
aatgataatgaaaatggcagatagaagataat-taaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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cttcatttgacagttgtccgtttccatctattgtagcatgtaatttgcaagttttggatttatcgtactgttatatt-tatatgttttgcttggattccagGAAGCAACCCCTGCGTGTGTACAGCATGGTGAAATATGCCGCAATAGCACGAGGGGATGTAGAAATATTCATGAAATTCGCTAGAGCTGGATACAAGGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G108364_T01 (Zea mays), 3'ss of exon 2
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttctt--ttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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-ctctgcgcgtgtacagcatccaaaatgtgactctt-gtatagttgctcaactaggtgttttgattgtactgtttatttacatcattttgctttgtatccagGAATCAACCTCTGCGCGTGTACAGCATGGTGAAATATGCTGCAATAGCACGAGGCGATGCTGAAATCTTCATGAAATTTGCAAGAGCTGGATACAAAGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G07450.1 (Glycine max), 3'ss of exon 2
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgt-gttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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-ttaaacatatctttagtttagggaaaaaaacacaaatgcaacataatttattagcttagttttagctttataagatatctttttttcatcacgtgtgcagGAAACAACCATTGAGGGTATACAGCATGGTGAAATATGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G31850.1 (Glycine max), 3'ss of exon 2
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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attaaaaatatctttagtttaggaaaaagacacaaacgcgacataatttattatcttagtttcagcttaataagatatctctttttcatcatgtatgcagGAAACAGCCATTGAGGGTGTACAGCATGGTGAAATACGCAGCAATAGCTCGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCCGGTTACAAGGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G25470.1 (Glycine max), 3'ss of exon 1
----aatga-taatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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aaagattgaatatttaaaatgtcacttggtaaa-ggtcaccaaagacaacataaatttctagcata---gtttataaggtatattattcgtcatttata-tgcagTAATCAGCCAGTAAGAGTATACAACATGATGAAATATGCTGCAATAGCTTGTGGGGATGCTGAGGTTTTCATGAAGTTTGCAAGGGCTGGTTACAAGGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S158_188V6.1 (Physcomitrella patens), 3'ss of exon 4
aatgat--aatgaaaatggcagatagaagataattaaaa--gaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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tataatttaatccttatgttaatcaacaaattcttaaagctgcaatactgtagacttctaagtcctggatcta--agttagtcgactcttctatttaac--cagGAATCAGCCGCTGCGAGTCTACAGTATGGCCAAATACGCAGCCATTGCTCGGGGTGATGCAGAGATCTTCATGAAGTTTGCAAAAGCTGGATATAAGGAG
upper sequence: Vv00s0301g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ19025 (Selaginella moellendorffii), 3'ss of exon 2
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttct--tttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
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----------------------------------------------gtacgcgaaagtctttctctgcgagcggcaaaaactaacttttgtctccctggcagGAAACGTCCGTTACGGGTCTACAGTATGGCGAAGTATGCAGCAATTGCTCGTGGCGACGCGGAGATCTTCATGAAATTCGCAAGAGCGGGTTACAAGGAGMapped 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|22013890|gb|BQ798924.1|BQ798924EST: AGCGTAGGGCTTAG GAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCG
genomic: AGCGTAGGGCTTAGgtctgtattt ... tcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
tttcttttccgtttc CT-rich tract
tttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgataatgaaaatggcagatagaagataattaaaagaagaaatggaaaacagaaacacatgtgttcattgagtagtttcttttccgtttcaactgcagGAAGCAACCGTTACGTGTATACAGCATGGTGAAGTATGCAGCCATAGCCCGTGGTGATGCAGAGATTTTTATGAAGTTTGCAAGAGCTGGCTACAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - -atgaaaa
- - - - - - - - - - - - aagataa
- - - - - - - - - - - - - - - - -aaaagaa
- - - - - - - - - - - - - - - - - - - - - - -ggaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgttc