Sequence
atgc intronic sequence ATGC exonic sequence...tcattacctatttgaatatgctactttgaaatccttctattgattatcaccctttttagaaaatcttctctactcttattaacatgttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0102g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G348666_T02 (Zea mays), 3'ss of exon 15
tcattacctatttgaatatgctactttgaaatccttctattgattatcaccctttttagaaaatcttctctactcttattaa-----catgttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
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---tcaaatatttaaagctcccaatcatgcatacttcgtttttttatt--tcttgctggttctttctgcaattgcttataagatacccgaattatgaaaatgcagGTTCTTGTAACAACTTGCGTGGTGATGGCTCCATTTACACCATTCTTTACTGAAGTTCTTTATCAAAATTTGCGGAAGGTGTCAAGTAATTCTGAGGAGA
upper sequence: Vv05s0102g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G158627_T03 (Zea mays), 3'ss of exon 2
tcattacctatttgaatatgctactttgaaatccttctattgattatcaccctttttagaaaatcttctctactcttatta---acatg--ttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
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---ttatttctatacctttaaatatttaaagatc--ccaatcatgcacacttttttttgtttcttctccagttgcttataagatacttgaattatgaaaatgcagGTTCTCGTAACAACTTGCGTGGTGATGGCTCCATTTACACCATTCTTTACTGAAGTTCTTTATCAAAATTTGCGGAAGGTATCAAGTAAATCTGAGGAGA
upper sequence: Vv05s0102g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA12G02330.1 (Glycine max), 3'ss of exon 15
---------tcattacctatttgaatatgctactttgaaatccttctattg----attatcaccctttttagaaaatcttctctactcttattaacatgttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
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gtatgcttgtgatatcttttatctataccttggttggttacagtattaccagaaaatgatggtaccttatgttagaacagttgtagacttaattataca---aattctttcagGTGCTTTTGTTATCCTGTAAAGTTATGGCTCCCTTTACACCTTTCTTCACTGAGGTGCTCTATCAAAATATGCGAAAAGTTTCTAATGGATCAGAGGAAA
upper sequence: Vv05s0102g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA11G09990.1 (Glycine max), 3'ss of exon 15
---------tcattacctatttgaatatgctactttgaaatccttctatt-------gattatcaccctttttagaaaatcttctctactcttattaacatgt-tggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
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gtatgtctgtgatatcttttatctataccttggttggtcacaatattaccagaaaaagatggtaccttatgctagagcagttgtagagtgtagacttaattatatgaattctttcagGTGCTTTTGTTATCCTGTAAAGTGATGGCTCCTTTTACACCTTTCTTCACTGAGGTGCTCTATCAAAATATGCGAAAAGTTTCTAATGGATCAGAGGAAAMapped 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|37185163|gb|CF604516.1|CF604516EST: GCCGTACAGGAGAAGGCGACTGCCGGACAGCTTTGTCAACTCTTTACTAT GTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACT
genomic: GCCGTACAGGAGAAGGCGACTGCCGGACAGCTTTGTCAACTCTTTACTATgtatgaatac ... tggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACT
EST:
gi|71861509|gb|DT010564.1|DT010564EST: GCCGTACAGGAGAAGGCGACTGCCGGACAGCTTTGTCAACTCTTTACTAT GTGCTTTTAACTTCGTGCAAAGTGATGGCTCCATTCACACCATTCTTCACT
genomic: GCCGTACAGGAGAAGGCGACTGCCGGACAGCTTTGTCAACTCTTTACTATgtatgaatac ... tggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaccctttttagaaaatcttctctactcttattaacatgttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
tattaac putative branch site (score: 1)
ttttt putative PPT
tttttagaaaatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcattacctatttgaatatgctactttgaaatccttctattgattatcaccctttttagaaaatcttctctactcttattaacatgttggtggtttttagGTGCTTTTAACTTCGTGCAAAGTAATGGCTCCATTCACACCGTTCTTCACTGAAGTTCTTTATCAAAATTTACGGAAAGTTTCCAATGGATCAGAGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
-cattacc
- - - - - - - - -atgctac
- - - - - - - - - - - - - - - -tccttct
- - - - - - - - - - - - - - - - - - - - - - - -caccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgtt