Sequence
atgc intronic sequence ATGC exonic sequence...tgttatcttaatagttagcccaatcaagagattaaggagttcatctcttgattttctataattaatatttttacgtttaactctggttcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G33320.1 (Glycine max), 3'ss of exon 2
tgttatcttaatagttagcccaatcaagagattaaggagttcatctcttgattttctataattaatatttttacgtttaactctggt-tcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT
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--------------gtaacct--tcaacacacttccatgttcac-------ttttttgttatta----ttttattattaatttttatgtttatgtttgtagGCATGGAGGCACGTACAAGGTTTTGAAAAACTTGCTCAAGCATAAGTTGTTGCACCACGACTCCTCTAAAT
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 2
tgttatcttaatagttagcccaatcaagagattaaggagttcatctcttgattttctataattaatatttttacgtttaactctggttcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT-
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-------------------------taactttcaacccacttccatattcactttttatttttatcgttgttac--taatttttatgttactgtttgtaggCATGGAGGCACGTACAAGGTTTTGAAAAACTTGCTCAAACACAAGTTGTTGCATCACGACTCTTCTAAATG
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 3
tgttatcttaatagttagcccaatcaagagattaaggagttcatctcttgattttctataattaatatttttacgt--ttaactctggttcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT
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-------gtatgccccggtct--ttgatgctttggatgttttccttctttattaagcttatttcttcattttgtataatctacatacctcttatattcacagACATGGAGGCACCTACAAGGTCCTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCACGATTCCTCTAAATMapped 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|110427485|gb|EC993924.1|EC993924EST: CATGAACTTGTACCTTCAGAGCTCGTGGTTCGCATAGCTTCTCTTAA GCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTT
genomic: CATGAACTTGTACCTTCAGAGCTCGTGGTTCGCATAGCTTCTCTTAAgtatggtctt ... atatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgattttctataattaatatttttacgtttaactctggttcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT
gtttaac putative branch site (score: 3)
attttctataattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttatcttaatagttagcccaatcaagagattaaggagttcatctcttgattttctataattaatatttttacgtttaactctggttcaatatttatagGCATGGAGGCACTTACAAGGTCTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - -ccaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctggttc