Sequence
atgc intronic sequence ATGC exonic sequence...gagatgaaataagtgctgaaccaatcttctttaggaggtgctcatcaattttcatctaatttaaaagtgtgtaaattagagacccttttcatgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACCAGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G123140_T02 (Zea mays), 3'ss of exon 9
gagatgaaataagtgctgaaccaatcttctttaggaggtgctcatcaattttcatctaatttaaaagtgtgtaaatt--agagacccttttcatgcatgc----agGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACC---AGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
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------aaattactttatacataatccccaaaatacagtttacttgagcattaagcattgttatgactgaaaacttttcattgcatcttctgatgaaaaccaacagGCTGCAAGCAACTCATCCCAGAACGTGGAGCTCATGCTGCAGGAGAGCAGCACCCACCCCGACGGCGGGAGCCTCGTGGTGTTTGCGACCGTGGACGTGG---
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 10
---------gagatgaaataagtgctgaaccaatcttctttaggaggtgctcatcaattttcatctaatttaaaagtgtgtaaattagagacccttttcatgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACCAGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
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tagagtttttttatttgatgtgaagtgaaatgatcttatt---aaaatgcaagtgaaaggttttctattctaaacct---taggttat---tcctacatatatatgcagGTAGCAAGCAACTCATCCCAGAACGTAGAGCTAATGCTGCAAGAGAGTTGCACCGACCAATCTGGAAGCCTAGTAGTGTACACAACCATCGACGTGGATG
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G34070.1 (Glycine max), 3'ss of exon 10
--gagatgaaataagtg--ctgaaccaatcttctttag--gaggtgctcatcaattttcatctaatttaaaagtgtgtaaattagagacccttttcatgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACCAGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
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aaattgtgaaatttttaatttgatgtgaaatggtctaattagaatgcaagtgaaaggttctctattccaaacct---taggttattgttacat---atatatgcagGTAGCGAGCAACTCATCCCAGAACGTAGAGCTAATGCTGCAAGAGAATTGCACCGACCAATCTGGAAGCATAGTAGTGTACACAACCATCGACGTGGATTMapped 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|30255074|gb|CB971521.1|CB971521EST: TTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT GTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGC
genomic: TTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAATgtaagtcttt ... atgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattttcatctaatttaaaagtgtgtaaattagagacccttttcatgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACCAGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
atctaat putative branch site (score: 3)
cccttttcat putative PPT
taatttaaaagtgtgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagatgaaataagtgctgaaccaatcttctttaggaggtgctcatcaattttcatctaatttaaaagtgtgtaaattagagacccttttcatgcatgcagGTGGCCAGCAATTCATCACAGAACGTAGAGCTCATGCTGCAAGAGAGCTGCACCGACCAGTCCGGCAGCCACGTGGTTTACACCACCATTGACGTGGATG
- - -gaaataa
- - - - - - - - -gaaccaa
- - - - - - - - - - - - - - - - -ggaggtg
- - - - - - - - - - - - - - - - - - - - ctcatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagtg