Sequence
atgc intronic sequence ATGC exonic sequencegttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 14
gttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgtt--acagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
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-gtaaactattttatagtattatattg--tcatgcattaccttgtgtccttaatagtgattatcatctaatttggacagGTAAATATCCACACAGACACCTTAAATGAGTCAGGCTGTGTGGAGCATACAATTGCCGCATTTAAAGATAGGACAATACATACATATCATAG
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 12
------gttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
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gcacaactttcttcaatatttccacttattta--cctttttgttacttttgttaatttttgttgtgaacttgtattataacagGTTAACATACATACTGACACCTTAAACGAATCTGGATTTGTTGAACATACAATTGCTGCATTTAAAGGAAGAACTATTCATACTTACCACAG
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G10850.1 (Glycine max), 3'ss of exon 12
gttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
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------------------------------gtaattttaat--caattttcgct-gctaactt--ttatgataacagATTAACATACATACTGACACCTTAAAAGAAGCTGGATTTGTCGAACATAGTATTGTTGCATTTAAAGGAAGAACTATTCATACTTACCACTG
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G27840.1 (Glycine max), 3'ss of exon 11
gttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
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------gcacaacattcttcattacattttcttttgtaatttttatcaatatctgctgctaacttttatgattacagATTAACATACATACCGACACCCTAAATGAAGCTGGATTTGTCGAACATAGCATTGCAGCATTTAAAGGAAGAACTATTCATACTTACCACAGMapped 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|161720992|gb|FC070359.1|FC070359EST: CTGCTGCAATAGATAATTGTTTGACTGTTGCAGAACAATATGACATCCAG GTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACA
genomic: CTGCTGCAATAGATAATTGTTTGACTGTTGCAGAACAATATGACATCCAGgttattttat ... tctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
ttcttac putative branch site (score: 2)
ttttcttactttctgt CT-rich tract
ttttatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattttattttatttatttatttaaacttttatgttacttgcagttgtagctagttttcttactttctgttacagGTTAATATCCACACTGACACCTTGAACGAGTCTGGCTTTGTGGAACATACAATTGCTGCGTTTAAAGATAGAACTATTCATACTTACCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC