Sequence
atgc intronic sequence ATGC exonic sequencegtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctgttttggttgagaagcataatttaagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 7
gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctgttttggttgagaagcataatttaagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gttggtgatt-tgtcattccttatgtcaaccttttcttcacaatcatactgaaatgcaattcaaggaacaacttccctcattgcaataccacctttacagGTATATCGGCTGAGGTTGCTTGGTGACTACCATCATTCTACTCGCATTGCCTTTGTGGAGTTTGTGATG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G161649_T01 (Zea mays), 3'ss of exon 5
-------------gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaa-cattgggctgttttgg----ttgagaagcataatttaagaa----aacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gttggtcattctttacttcaaacttcctttccctggtgtacagtttgtgttgcttaaatgtttgcagaaaatgacaatttaaccatcacagtataattggctcatcgcaatgactgctacagGTCTTTCGGCTGAGGTTGCTTGGTGACTACCATCATTCTACTCGCATCGCTTTTGTGGAATTTGTGATG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 6
-------------gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctg----ttttggttgaga-agcataatttaagaa----aacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gttggtcattctttacttcaaacttcctttccctggtgtacagtttgtgttgcttaaatgtttgcagaaaatgacaattcaaccatcacagtataattggctcatcgcaatgactgctacagGTCTTTCGGCTGAGGTTGCTTGGTGACTACCATCATTCTACTCGCATCGCTTTTGTGGAATTTGTGATG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 5
--------------gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctgttttggttgagaagcataat-ttaagaaaacattttgtatggtg-cagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gttggtcgttctttactccaaacacaatctcccttctgtacagctaaaagtttgcagaaat--ggcaattcaaccagcacagtatatcgttggctcatggcaatggctgctaacagGTATTTCGACTGAGGTTTCTTGGCGACTACCATCATTCTACCCGCATCGCTTTTGTGGAATTCGTGATG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 6
--------------gtttgtaatcatgcctgtcttgaaaatgaagttatgtttctta-acattgggctgttttgg----ttgagaagcataat----ttaagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gttggtcattctttacttcaaacttcctttcccttgtgtac-agtttgtgttgcttatatgtttgcaaaaaatgacaattcaaccagcacagtatcattggctcatcgcaatgactgctacagGTCTTTCGGCTGAGGTTGCTTGGTGACTACCATCATTCTACTCGCATCGCTTTTGTGGAATTTGTGATG
upper sequence: Vv02s0025g02740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 3'ss of exon 7
----------------------------------------------gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctgttttggttgagaagcataatt-taagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
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gtaactaaacctgcggtcactttcgattttattcgtttatttattagctcgctgcaatttctaatgcttcacctgagccgtatacattgcagtggtttcgttttactttcatttgatgggaatctggacgtgtgatggaatgtgaagGTTGCTCGGCTAAGATTGTTGGGTGACTATCATCACTCTACTCGAATCGCATTTGTCGAGTTTGTGATGMapped 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|34416313|gb|CF415067.1|CF415067EST: GTCTCTCAAGCTGATGTTAAACTCTTTTTTGAATCGGTCTGTGGAGAG GTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCA
genomic: GTCTCTCAAGCTGATGTTAAACTCTTTTTTGAATCGGTCTGTGGAGAGgtttgtaatc ... tatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCA
EST:
gi|30129918|gb|CB915257.1|CB915257EST: AGGTCTCTCAAGCTGATGTTAAACTCTTTTTTGAATCGGTCTGTGGAGAG GTTTATCGTNTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCA
genomic: AGGTCTCTCAAGCTGATGTTAAACTCTTTTTTGAATCGGTCTGTGGAGAGgtttgtaatc ... tatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgggctgttttggttgagaagcataatttaagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
ataatttaagaaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtaatcatgcctgtcttgaaaatgaagttatgtttcttaacattgggctgttttggttgagaagcataatttaagaaaacattttgtatggtgcagGTTTATCGTTTGAGGCTTCTTGGAGACTATCATCATTCTACTCGCATCGCATTTGTTGAGTTTATAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA