Sequence
atgc intronic sequence ATGC exonic sequence...tttttcatcccgcattgcctttttgccccaaaaaatggggaaaagaaatattgatcctagcaggaaatgagaactgagttcagattttcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G461948_T01 (Zea mays), 3'ss of exon 12
tttttcatcccgcattgcctttttgccccaaaaaatggggaaaagaaatattgatcctagcagg---aaatgagaactg-agttcagattttcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
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---tccgttcttggtttttctacagtgatatcaacttgagactcataatgt-gctctaaatttgtttatgcaagaacgataattaacgttgttacttgatgtagGTTCCATGTGATGTAACACTTTGGGCATCAATTGGAGGCCAAGATGTAGATCGTCTTCCATCTGCTTCCACATGCTACAATACGCTCAAG
upper sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G34650.1 (Glycine max), 3'ss of exon 13
tttttcatcccgcattgcctttttgcccc-aaaaaatggggaaaagaaatattgatcctagcaggaaatgagaactgagttcagattt-tcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
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tttgcaacatcatgatccagtcatgtgttgaaagaatccctaaaaataataaaatgtattgattccattgattaaca--ttcatgtctatttgtttacacagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGACTTCCATCAGCTTCAACCTGCTACAATACTCTTAAG
upper sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA19G37310.2 (Glycine max), 3'ss of exon 14
tttttcatcccgc-attgcctttttgccccaaaaaatggggaaaagaaatattgatcctagcaggaaatgagaactgagttcagattt-tcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
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tttgcaacatcatgatccagttatgggttggaagaatccctaaaaataataaaatgtcttgattccattgattg--gcattcatgtctatttgtttacaaagGTTGCATGTGATGTTCCTCTTTGGGCAACAATTGGAGGACAAGATGTAGATCGGCTTCCATCAGCTTCAACCTGCTACAATACCCTTAAGMapped 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|110363275|gb|EC926852.1|EC926852EST: CTCCATTACTTGGATTTAAACACCTGCAGCCAACTTTTACTATTCATAAG GTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAG
genomic: CTCCATTACTTGGATTTAAACACCTGCAGCCAACTTTTACTATTCATAAGgtatgctttg ... ctttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatattgatcctagcaggaaatgagaactgagttcagattttcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
tattgat putative branch site (score: 3)
ttttcactttctat putative PPT
tttctata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttcatcccgcattgcctttttgccccaaaaaatggggaaaagaaatattgatcctagcaggaaatgagaactgagttcagattttcactttctatagGTTGCATGCGATGTGCCTCTTTGGGCAACAATTGGGGGACAGGATGTAGAGCGACTTCCCTCAGCTTCCACATGCTACAACACGCTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - tcatccc
- - - - - - - -tgccttt
- - - - - - - - - - - ttgcccc
- - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cctagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaga