Sequence
atgc intronic sequence ATGC exonic sequencegtttgtagctctcaatctgttgacatgttgtcatactatgattttacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os01g67740.1 (Oryza sativa), 3'ss of exon 16
gtttgtagctctcaatctgttgacatgtt--gtcatactatgatttta-cttatgataa---tatgccttta---atagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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gtgggtcttaccttttctagtgataacctaggacttactttaaaagcagcatacgtaaaccttttgttttcatctgcagAATGACAAGTCAAAAATCAAGACAGTGATAGAAGAGTTGGATGAGAAGAAGAAAGAGACCTTGAAAGTCACATGGCTTAAAGTAAACAA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G006452_T02 (Zea mays), 3'ss of exon 10
gtttgtagctctca--atctgttgacatgttgtcatacta----tgattttact-tatgataatatgcct-------ttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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----gtatctcctatcatgtacagttttcttgataaactgaaagtagttttaatatctgggcacataccttgtctcatctgcagAATGACAAGGCAAAAATCAAGAAAGTGATAGAGGAGTTGGATGAGAAGAAGAAGGAAACATTGAAGGTCACTTGGCTCAAAGTAAACAA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 17
gtttgtagctctcaatctgttgacatgttgtcata--------ctatga---ttttacttat--gataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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----gtaatttccaatctatttccacatttttctaactttcttccataaatgcttaatctatttatctatttatttttcctagAATGACAAGTCTAAAATCAAGATGGTGATTGAAGAGCTAGATGAGAAGAAGAAGGAGACACTAAATGTTACCTGGATCAAAGTGAATAA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 17
gtttgtagctctcaatctgttgacatgttgtcatactatgattt-----tacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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----gtgattttcaatctatttccacattttctaactttcttgtataaatgcttaatctatttattttttcctagAATGACAAGTCTAAAATCAAGAAGGTGATTGAAGAGCTAGATGAGAAGAAGAAGGAGACACTTAATGTTACCTGGATCAAAGTGAATAA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 16
--------------gtttgtagctctcaatctgttgacatgttgtcatact-atgattt-tacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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gttagttttggagggtctgtgcaacatagtttaaaaagcttaaaacacatttacgaactatgtttttttttttttcattttcttagACTGACAAATCAAAAATCAAGAAAGTTATTGAGGAGCTTGATGAGAAGAAAAAAGAAACACTGAAAGTTACATGGGTTAAAGTTAACCA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 16
-------------gtttgtagctct---caatctgtt--gacatgttgtcatactatgattttacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
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gttagttacagaggacagagggcctttgcaatgtatttcaatagcttcgtgtgccatcataacacaattttttcggtttttttcctagAATGACAAATCAAAAATCACGAAAGTGATCGAGGAGCTTGATGAGAAGAAAAAAGAAACCCTGAAAGTTACTTGGGTTAAAGTTAACCAMapped 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|122692151|gb|EC993608.1|EC993608EST: AAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAG AATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAG
genomic: AAGCAGAAGATGAGTACAATGAATTAATATCCAAGAAAAGCATAATTGAGgtttgtagct ... cctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttgacatgttgtcatactatgattttacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
tgttgac putative branch site (score: 3)
tgccttt putative PPT
atactatgattttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtagctctcaatctgttgacatgttgtcatactatgattttacttatgataatatgcctttaatagAATGACAAGTCAAAAATCAAGATGGTGATTGAAGAGCTGGATGAAAAGAAGAAGGAAACATTAAAGGTTACTTGGACTAAAGTTAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA