Sequence
atgc intronic sequence ATGC exonic sequence...attactgataagatcctaagttatcaattcaatacattttagttaataaattttttttaatgaagtttgtgttattctaatgatcacttgtttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 3'ss of exon 24
attactgataagatcctaagttatcaattcaatacattttagttaataaattttttttaatgaagtttgtgttattctaatgatcacttgtttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
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-----------gtttgtttgtgaa-aatacatgatatatcttctcgtttgcttttctta-catcataaatgttttttttggtacta-ttgtcc-----agGTTCTGTTCGATTTAATCTGGATCCTTTTAATGAGCACAATGATGCGGATCTCTGGGAAGCGCTTGAAAGGGCTCATCTAAAAGATGTCATAAGGAGGAA
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GRMZM2G084181_T01 (Zea mays), 3'ss of exon 23
attactgataagatcctaagttatcaattcaatacattttagttaataaa---ttttttttaatgaagtttgtgttattctaatgatcacttgt-ttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
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---------------gtatgctagtgaaa-aatacatgttagctgctggagcttctttttttggcaacttgggtttagtgaaatatttattaatgccctttcagGTTCTGTTCGGTTTAATCTGGATCCCTTTAATGAGCACAATGATGCGGACCTCTGGGAGGCTCTGGAAAGGGCTCATCTAAAAGATGTTATAAGGAGGAA
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 23
attactgataagatcctaagttatcaattcaatacattttagttaat--aaattt---tttttaatgaagtttgtgttattctaatgatcacttgtttcac---atagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
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-------agaatattttaacttctgaatt-aatgttttgcaggtaattgaaatataaaatttaaataatgtcattgtaataatattaagctcatcttacacttcatagGAACTGTGAGATTTAATCTCGATCCATTCAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAA
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 23
attactgataagatcctaagttatcaattcaatacattttagttaataaattttttttaa-tgaagt--ttgtgttattctaatgatcac-ttgtttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
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----tcatttaacttctgaatcaatgttttgtaggtaattaattagaatataaaaatcaaataatgtcattgtaataatattaagctcaccttactctttatagGAACTGTGAGATTTAATCTTGATCCATTTAATGAACACAATGATGCTGACCTCTGGGAGGCTCTGGAGAGGGCACATTTGAAGGATGTGATACGGAGGAAMapped 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|122689215|gb|EC935332.1|EC935332EST: TCTACGTAAAGTTCTTGGTATTATACCACAATCACCAGTTCTTTTCTCAG GAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACC
genomic: TCTACGTAAAGTTCTTGGTATTATACCACAATCACCAGTTCTTTTCTCAGgtatactaca ... tttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaattttttttaatgaagtttgtgttattctaatgatcacttgtttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
ttctaat putative branch site (score: 2)
cttgtttc putative PPT
ttttttttaatgaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attactgataagatcctaagttatcaattcaatacattttagttaataaattttttttaatgaagtttgtgttattctaatgatcacttgtttcacatagGAACTGTGCGATTCAATCTTGATCCTTTCAACGAGCACAATGATGCTGACCTCTGGGAGGCTTTAGAGAGGGCACATTTGAAGGATGTTATCAGGAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - gataaga
- - - - - - - - - - - - - - -caataca