Sequence
atgc intronic sequence ATGC exonic sequence...gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g07230.1 (Oryza sativa), 3'ss of exon 5
-gacatc-taagagcaatgc--tctcaaatat-gtgttgttccattcctttgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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taaaataataaaaacaaagtaatgtcaaacatcagattatacttctccctctgag--aaacaagcatacatgttcaagatctcattaaagtacacttt---tcagGACACTTGACATCCAAGAGCGATGTATATAGCTTCGGAGTAGTGTTACTCGAGATGTTAACCGGTAGACGATCAATGGACAAGAAGCGGCCTACTGGGGA
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G007801_T01 (Zea mays), 3'ss of exon 2
-gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgacaccttac-ctgtacaattttggctctttttctc--ttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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tgaaaactgaaaaacataacaaaaagtgttagtttaacgattcttt----ctttaagcagttgatatgtcaagttttgttactcatgttatgcatattgttcagGGCACTTGACATCTAAGAGTGATGTTTATAGCTTCGGAGTTGTGCTACTCGAGATGTTGACTGGGAGAAGATCAATGGACAAGAAGCGGCCTACGGGGGA
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G22790.1 (Glycine max), 3'ss of exon 5
----gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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tcccgtgctcatctatccaggcaccacaatatggtgtggatggctttctaagacctatgagaactaac----caattgtgtttcttttttttttttttaaccagGACACTTGACAGCTAAAAGTGATGTTTATAGCTTTGGAGTTGTGTTACTTGAGATATTAACAGGAAGAAGATCAATGGACAAGAAGCGCCCGAGTGGGGA
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 5
gacatctaagagcaatgctctcaaatat-gtgttgttccattcctttgaacttgaaaaatttgacaccttacctgt-acaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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--catcccatgctcatctatccaggcaccacaatatggtgtagatggctttctaagacctatgagaactaaccaattgtgtttcttgttttttttttaccagGACACTTGACAGCTAAAAGTGATGTTTATAGCTTTGGAGTTGTGTTACTTGAGATATTAACAGGAAGAAGATCAATGGACAAGAAGCGCCCGAGTGGGGA
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ22709 (Selaginella moellendorffii), 3'ss of exon 5
gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgaca--ccttacctgtacaa---ttttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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---------------------------------gtaagttcacaaagaaagaaaaaaaattgagagttcttgaacttaaaaggatcgtacctttgtttcctccagGTCACTTGACAGCCAGGAGCGATGTTTACAGCTTTGGAGTTGTCTTCCTGGAGATGCTAACTGGCAGACGATCCATGGACAAGTCTAGACCCACTGGCGA
upper sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ19239 (Selaginella moellendorffii), 3'ss of exon 5
gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
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------------------------gtaagttcacaaggaaagaaaaaaacttgagagttcttgaacttaaa----aggatcgtacctttgtttcctccagGTCACTTGACAGCCAGGAGCGATGTTTACAGCTTTGGAGTTGTCTTCCTGGAGATGCTAACTGGCAGACGATCCATGGACAAGTCTAGACCCACTGGAGAMapped 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|110364323|gb|EC923876.1|EC923876EST: AAGGGTTGTTGGAACATATGGCTATGCTGCTCCCGAATATGTGAGGACAG GACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTG
genomic: AAGGGTTGTTGGAACATATGGCTATGCTGCTCCCGAATATGTGAGGACAGgtataagtaa ... tttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
accttac putative branch site (score: 3)
ttttggctctttttct putative PPT
ttgaaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacatctaagagcaatgctctcaaatatgtgttgttccattcctttgaacttgaaaaatttgacaccttacctgtacaattttggctctttttctcttagGACACTTGACATCTAAGAGCGATGTTTACAGCTTTGGGGTTGTGCTACTTGAGATTTTAACTGGTAGAAGATCAATGGACAAGAAACGCCCTCGCGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - caatgct
- - - - - - - - - - -caaatat
- - - - - - - - - - - - - - - - - - ccattcc
- - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaaa