Sequence
atgc intronic sequence ATGC exonic sequence...agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g50510.1 (Oryza sativa), 3'ss of exon 3
-----agtgtt-tggttaacctattt--cttattatgtcat-ataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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ttatcagtgttgcaattaatatatgtgtttcattgcattgttgcactctagtcaggttgggatg--gaatgttctgt-----atatt--ttacagcagctcttctacagGTGAAAATAATTGGAGTGGAGCCATCAGATGCAAATGCAATGGCATTGTCCTTGTGTCATGGTCAAAGGGTCATGCTGGAGCAAGTTGGTGGGTTTGCTG
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G569855_T01 (Zea mays), 3'ss of exon 3
-agt--gtttggttaac-ctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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gaatcaatcttgtcaatgcaatttctttctggatcttacattggtttctagccagactgata--tattttctggaatgtttttgcaac--ttttttttgtacagGTGAAAATAATTGGAGTGGAACCCTCCGATGCAAATGCAATGGCATTATCCTTATATCATGGTAAGAGGGTCATGTTGGAGCATGTTGGTGGGTTTGCTG
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G155323_T01 (Zea mays), 3'ss of exon 3
agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttt---tgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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catattggatcaatct---tgttaatgtaatgtatattacattggtttctagtcaggctgattttttttggaaaggttttttgaaatgtttttctttgtacagGTGAAAATAATTGGAGTGGAACCCTCAGATGCAAATGCAATGGCATTATCCTTGTGTCATGGTAAGAGGGTCATGTTGGAGCATGTTGGTGGGTTTGCTG
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 3
agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcat-aatatcttttgt------acagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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-----------------gtttgcatgattttatgttattggttgtgattttg-tatgtcttccttcatttagagaaatgattattggcttctgttatgaatacatagGTGAAGATTTTTGGGGTGGAACCCACTGATGCGAATGCAATGGCATTGTCACTCCATCATGATCAGAGAGTGATTTTGGATCAGGTTGGAGGATTTGCAG
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G21230.1 (Glycine max), 3'ss of exon 3
agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgt------acagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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-----------------gtttgcatgatgttatgttatcggttgtgattttg----tatgtcttcctttagagaaatgattattgacatctgttatgaatacacagGTGAAGATTTTTGGGGTTGAGCCCACTGATGCAAATGCAATGGCGTTGTCACTCCACCATGACCAGAGAGTGATTTTGGACCAGGTTGGGGGATTTGCAG
upper sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S370_61V6.1 (Physcomitrella patens), 3'ss of exon 3
---agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
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tataatagctctttaggtgaatcagttttgt-ttatcta--agtgtagtttaaagattttgctttcgagagtgtcacttttgtgcataattattgtttcacagGTGAAGATTATTGGTGTGGAGCCTGCTGATGCCAATGCAATGGCTTTGTCACTTTACCATGGTAAACGTGTTGTCCTGGATCAAGTTGGGGGCTTTGCTGMapped 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|27585960|gb|CB008655.1|CB008655EST: GTGAAGAGGGTTTCTCCAGAG GTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCG
genomic: GTGAAGAGGGTTTCTCCAGAGgtctgtgctt ... ttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
cactaat putative branch site (score: 2)
tatctttt putative PPT
taatcataatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgtttggttaacctatttcttattatgtcatataggagagtgaggctggaacaccaactatttcattacaagcactaatcataatatcttttgtacagGTAAAGATTATTGGGGTGGAGCCCTGTGATGCAAATGCAATGGCATTGTCGTTACATCACGATCAGAGAGTCATGCTAGACCAGGTGGGAGGTTTTGCGG
- tgtttgg
- - - - - - - - - - - - - - - - - - - - - - aggctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - acaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaagca