Sequence
atgc intronic sequence ATGC exonic sequence...tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G37210.1 (Glycine max), 3'ss of exon 6
tgctt-cttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattt-tgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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-gtttgttttgtttggagcttgtggattaagtttgtggaatgtggagcccttgtttgctgattgctgatgttga-actgtctacttttgccatcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G28980.1 (Glycine max), 3'ss of exon 6
-----------------------------tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgt-------------tcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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gtgctaatctaatccttgcattatttctttatgctttagtgttgcatgtatattgcttgtggttatgaatgatagagattgtggactatttctgta-ctgattgctgatactgacctgtctatttttaccttttttgtttagGCAATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G30430.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------------------------------tgcttcttaattcagata--tcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgt-tcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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gtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgattgttgatgttga-actgtctactttttccatcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------------------------------------------------tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgt---tcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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gtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaaca-ataaatatatcatatggttggaatggct--cttgtgcatgtgattgtctaattagatttgtgtatgtcttacagGCAATGGTTGCAAGAGGTGATCTTGGTGCAGAGCTTCCAATTGAAGAAGTCCCCATTCTTCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ15169 (Selaginella moellendorffii), 3'ss of exon 4
tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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---------------------------------gtaagactaaggtttactttacgccgtttctga----gaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTTCCCCTCCTTCAG
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
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---------------------------------gtaagactaaggtttactttacgccgtttcttgagaattatatcgcat---tcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAGMapped 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|110698146|gb|EE075377.1|EE075377EST: GTGCCGACTCCATTCCCAATCTACATTCAATTATTACCGCATCTGATGGG GCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTC
genomic: GTGCCGACTCCATTCCCAATCTACATTCAATTATTACCGCATCTGATGGGgtaatcgtct ... tcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
atctaaa putative branch site (score: 3)
cattttgttcctct putative PPT
aaaacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
tgcttct
- - - - - - - - - - aaagacc
- - - - - - - - - - - - - - -gcaacta
- - - - - - - - - - - - - - - - - - - - - - - - -acctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaca