Sequence
atgc intronic sequence ATGC exonic sequence...ttgtatggtagtttaggattcttgagctagttgttaggatccttcaactttagagagaaggaatggtagtgatatgttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 5
--ttgtatggtagtttaggattcttgagctagttgttaggatccttcaactttagagagaaggaatggtagtgatatgttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
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gcttttgatttatatttaatttattctctttgtaattagaccttatttagtcaatccttacattttgct--ttatcttttaattaatcgttttctcttgtagGCATACATGTTCAAATATGATTCTACTCATGGTCCATTCAAGGGGACCATTAAGATTTTGGATGACTCTACTTTGGAAATTAATGGGAAGCAGGTTAAAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 5
ttgtatgg-tagtttaggattcttgagctagttgttaggatccttcaactttagagagaaggaatggtagtgatatgttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
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-tttatggctgatgcttggtttttgatttatatttaatttattctctttgtaattggaccctatttacattttgcttttaattattctttatctcttatagGCATACATGTTCAAATACGATTCTACTCATGGTCCATTCAAGGGGTCCATTAATATTTTGGATGACTCTACTTTGGAAATTAATGGGAAGCATGTTAAAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G16300.1 (Arabidopsis thaliana), 3'ss of exon 5
ttgtatggtagtttaggattcttgagc---tagttgttaggatccttcaactttagagagaaggaatggtagtgatat--gttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
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-----taactgatccacgtgcttgaacacgtaatattaatcatacttaaaggcatgggataatatatcaaacttaaaccaaatcttctctcctcctcttatgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAAATTACAAAGGAACTATCAATGTAATTGATGATTCAACTTTGGAGATCAATGGAAAACAAGTCAAAG
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------ttgtatggt--agtttaggatt-cttgagctagttgttaggatccttca-actttagagagaaggaatggtagtgatatgt-tggttttcgtttatttta---cgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
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gtaaggatgccttacaatctgagtcatgttcttgcttgcttgaacctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacagGCTTACATGTTGAAGTATGATTCTACTCATGGAAATTTCAAGGGAAGCATCAATGTCATTGATGATTCTACTTTGGAGATCAATGGGAAGAAGGTCAATGMapped 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|71863317|gb|DT012372.1|DT012372EST: ATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATG GCTTACATGTTCAAGTACGATTCTACTCATGGAGTTTTCAAGGGAACCATC
genomic: ATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATGgtaaggattt ... ttttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATC
EST:
gi|30131309|gb|CB916648.1|CB916648EST: GGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATG GCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATC
genomic: GGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATGgtaaggattt ... ttttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactttagagagaaggaatggtagtgatatgttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
ttttcgtttatttt CT-rich tract
ttttcgtttatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtatggtagtttaggattcttgagctagttgttaggatccttcaactttagagagaaggaatggtagtgatatgttggttttcgtttattttacgcagGCTTACATGTTCAAGTATGATTCTACTCATGGAGTTTTCAAGGGAACCATCAAGGTATTGGATGAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
-tgtatgg
- - - - - - - - - - - - - - - - - - - - ccttcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -agaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgttgg