Sequence
atgc intronic sequence ATGC exonic sequencegtactttaattcatgctgtgattatgttaaatacaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 17
-------------------------------------------------------------------------gtactttaattcatgctgtgattatgttaaatacaatgctctgctaattcagta--tctt----gtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
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gtgctaacatcttcacaaatccttcactgttttttttgtatatcatgcaaaactattttggttctttcagagttcagactccttggtgccatgatctcttgtatgccaattccttgtgaagatactaattcttctaagttgctatgcagGCAAAATATCTAGATATATTTATGCCGCCTTTGATCACGAAGTGGCAGCAACTTTCCAATTCTGACAAAGATCTATTTCCACTCCTTGAATGCTTTACAT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 17
-------------------------------------------------------------------------------------gtactttaattcatgctgtgattatgtt--aaatacaatg-------ctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
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gtatgctatttttattactaatccattgcatggtagaacaatcatccttcttcctcaaactaaacttttatttttttcccaagttatttttcatgatttattatcaatatcctcgaaataaaattttattttcttcacctactgtatctctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAGTGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCGCTCCTGGAATGCTTTACAT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 17
-------------------------------------------------------------------------------------------------gtactttaattcatgctgtgattatgttaaat-acaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
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gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacatttcttgacctact--gtatctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 17
-------------------------------------------------------------gtactttaattc---atgctgtgattatgttaaatacaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
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gtataacaattgggtttgtacaaggttaatctgatcttgtaaatttagctccttgactagtgtttttcaaatccatatactggtggtagtataagtttttttctttgcctacttaagtttcctctctcatgcagCCTGCTTATCTTGAGATTCTGATGCCTCCACTGGTTGCAAAGTGGCAACAACTTTCAAATTCAGATAAAGATCTATTTCCATTGCTAGAGTGCTTTACATMapped 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|34550426|gb|CF518644.1|CF518644EST: ATGATGCTATTGCAACTTTAGCAGATGCTGTAGGAGAGAAACTAAATCAG CCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAA
genomic: ATGATGCTATTGCAACTTTAGCAGATGCTGTAGGAGAGAAACTAAATCAGgtactttaat ... ttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtgattatgttaaatacaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
tgctaat putative branch site (score: 2)
tatcttgttttttt putative PPT
attatgttaaatacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttaattcatgctgtgattatgttaaatacaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA