Sequence
atgc intronic sequence ATGC exonic sequencegtatggaaaaacaccccagaaccctctcaggatttccaatttttggtatgaaaaattgaaatgggtattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G36110.1 (Glycine max), 3'ss of exon 2
gtatggaaaaacaccccagaaccctctcaggatttccaatttttggtatgaaaaat----tgaaatgggtattc-----atggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
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-tattatttaatactagtatgtgttataatgctctgaagtacttattaaaattaatgctttggaagagttgtttttcaaatggttatttttgcaatgtcagGTGGGCTCAAATTGCAGCTCAATTACCAGGGAGAACAGATAATGAGATTAAGAACTTTTGGAATTCATGTTTGAAGAAGAAGCTAATGAAGCAAGGGATT
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G02550.1 (Glycine max), 3'ss of exon 2
-------gtatggaaaaacacccca---gaaccctct----caggatttccaatttttggtatgaaaaattgaaatgggtattcatggattctttgggaattg-----------------cagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
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gtaacatatattgaaggatgatcaatatgattcatataaaacaaattctttttcttatgttagataacaagaaaatggctatatattgattggttgtgaaatggtttttctttttaatatcagGTGGGCTCAAATAGCAGCACAGTTACCAGGGAGAACAGACAATGAGATTAAGAACTTCTGGAACTCATGTTTAAAGAAGAAGCTTCTGAAGCAAGGGATT
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G18830.1 (Glycine max), 3'ss of exon 2
--------------------gtatggaaaaacaccccagaaccctctcaggatttccaatttttggt--atg----aaaaattgaaatgggtattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
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gtagaattaaatacattgaattaatgttatattatttagtatgtgttaatgaagtacatattataattaatgctttagaagtttttttttttttaaatggttatttttgcaatgtcagGTGGGCTCAAATTGCAGCTCAATTACCAGGGAGAACAGATAATGAGATTAAGAACTTTTGGAATTCGTGTTTGAAGAAGAAGCTTATGAAGCAAGGGATT
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G09310.1 (Glycine max), 3'ss of exon 2
--------------------------gtatggaaaaacaccccagaaccctctcaggatttccaatttttggtatgaaaaat----tgaaatgggtattcatgga------ttctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG------------------
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gtaacatatatattgaaggatgatcaatatgatataggagtataaaaattcttttc--cttatgttacataacaagaaaattgctatatattgattggttgtgaaatggttttctttttgaatatcaggtgggctcaaatagcagCA-AGTTACCAGGGAGGACAGATAATGAGATTAAGAACTTCTGGAATTCATGTTTAAAGAAGAAGCTTCTGAAGCAAGGGATTGACCCAAGTACACACAAG
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S211_139V6.1 (Physcomitrella patens), 3'ss of exon 2
-------gtatggaaaaacaccccagaaccctct-caggatttccaatttttggtatgaaaaattgaaatg--ggtattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG-
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gatgagagattctgtcaacccttgtgaatggtcgacatgatacaacattgttatttttaattttttaatttttaaaattagtcaatcggt--gggtctgcagGTGGTCACAGATTGCAACACAACTCCCAGGCCGCACGGACAACGAGATCAAGAACTTCTGGAACTCATGCATCAAGAAGAAGCT-CCGCAGCATGGGAATC
upper sequence: Vv17s0000g09080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ38262 (Selaginella moellendorffii), 3'ss of exon 2
gtatggaaaaacaccccagaaccctctcaggatttccaatttttggtatgaaaaattgaaatggg--tattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
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--------gtgtgtgctcgagcgagct--ggaattcga---tttggtgtggaaatgtagcattggattgatgctgaattgtttcca---tacagGTGGGCGCAAATTGCGACGCAGCTCCCGGGTCGAACAGACAACGAGATTAAAAACTTTTGGAACTCGTGCCTGCGGAAGAAGCTACGTCAAGTTGGTATCMapped 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|161710223|gb|FC058946.1|FC058946EST: CAGCAAGAGGAGGATCTCATAATAAGCCTGCATCAGGTTCTAGGCAACAG GTGGGCTCAGATTGCAGCACAATTGCCAGGGAGAACAGACAATGAGATTAA
genomic: CAGCAAGAGGAGGATATCATAATAAGCCTGCATCAGGTTCTAGGCAACAGgtatggaaaa ... ggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttttggtatgaaaaattgaaatgggtattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
tatgaaaaattgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggaaaaacaccccagaaccctctcaggatttccaatttttggtatgaaaaattgaaatgggtattcatggattctttgggaattgcagGTGGGCTCAGATTGCAGCACAATTGCCAGGAAGAACAGACAATGAGATTAAGAACTTTTGGAACTCATGCTTGAAGAAGAAGCTACTGAAGCAAGGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG