Sequence
atgc intronic sequence ATGC exonic sequence...ctcctcagcaattaattttggttaatttgaagaaatatgaatcttttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G088361_T01 (Zea mays), 3'ss of exon 5
ctcctcagcaattaattttgg--ttaatttgaagaaatatgaatcttttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT
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ttgtttagaatttgcttacgcctttaatttccccttggttgcttagatttatataagaccatttgatcgcatattattatctctgt--gctttgaatgttagGTGGATACAAATGGTAGAGGAGCACTAGATTACGGTGAATTTTTGGCTGTCTCGCTCCATTTACAAAGGATGGCAAATGACGAGCACCTTCGGCGGGCCT
upper sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 7
ctcctcagcaattaatt--ttggttaatttgaagaaatatgaatcttttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttgg-aacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT-
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-ttttcatgttttaaaccattgtttgaacggtacaaagtaaaatattttagc-ttgaaatggttcttcttttgtcttttaatcatt--gcatgttgacaacaggTAGATACTAATGGTAAGGGAACACTAGACTATGGAGAATTTGTTGCTGTTTCCCTTCATTTAAAAAGGATGGCTAATGACGATCATCTTCACAAGGCCTT
upper sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G18310.1 (Glycine max), 3'ss of exon 5
ctcctcagcaattaa--ttttggttaatttgaagaaatatgaatcttttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT
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gttttcatgttttaaaccattatttgaatggtacgaagtaaaatattttatc-ttgaaatggttcttgttttgtcttttaatcattgcactt-tgacaacagGTAGATAGTAATGGTAAGGGAACACTAGACTACGGGGAATTCGTTGCTGTTTCCCTTCATTTAAGAAGGATGGCTAATGACGATCATCTTCACAAGGCCTMapped 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|110702917|gb|EE079305.1|EE079305EST: AGTTTGGTTCCCAGCTTGCAGAGGCTGAAGTCCAGATGCTTATTGAAACT GTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTT
genomic: AGTTTGGTTCCCAGCTTGCAGAGGCTGAAGTCCAGATGCTTATTGAAACTgtaagtgtac ... gttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTT
EST:
gi|33405399|gb|CF211026.1|CF211026EST: AGTTTGGTTCCCAGCTTGCAGAGGCTGAAGTCCAGATGCTTATTGAAACT GTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTT
genomic: AGTTTGGTTCCCAGCTTGCAGAGGCTGAAGTCCAGATGCTTATTGAAACTgtaagtgtac ... gttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT
tctaaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcctcagcaattaattttggttaatttgaagaaatatgaatcttttagcattgagtcagtgtctctctaaatattgagttgacaagcttgttggaacagGTAGATACCAATGGTAAAGGTACACTGGACTATGGGGAATTTGTTGCTGTTTCCCTCCATCTACAAAGGATGGCCAATGATGAGCATCTTCGCAAGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
ctcctca
- - - - - - - - - - - - - - gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaagct