Sequence
atgc intronic sequence ATGC exonic sequenceGGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g53130.1 (Oryza sativa), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacat---tttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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TGTCGAGGTGCTCGAGCTGCTCGCCGCCAAGGAGATCGCCGTCCGCGCCTGGGACGAGTCCCTCAACACCCAGCCGGAGAAGCTCATTTGGAATCTCATGgtaagcactaagcaccagcaacggcaacgccatccgtttcaacgacgacgatgtgcttacgttttggttcgtgtgcgtgtgtgcag-----------------
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os08g36480.1 (Oryza sativa), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctat-ccctgtctcccttcaatcacattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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GGTCGAGGTGCTCGACCTCCTCGGCGCCAAGGAGATCGCCGTGCGCGCCTGGGACCAGTCGCACAACACCCAGCCCGAGAAGCTCATCTGGAATCTCATGgtaggtgcttcattccgtctccggccaaggcgacggcgatgta-gacgacgatggcaaattcattcgatcggttgggtttttgcag---------------
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G568636_T01 (Zea mays), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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GGTGGAGGTCCTCGACCTGCTCGGCGCCAAGGAGATCGCCGTGCGCGCATGGGACCAGTCGCTCAACACCCAGCCCGAGAAGCTCATATGGAACCTCATGgtacat---atatatactagcacataatattaatactgaataagtttctgtttctgctcctgatgatatataaatctgatgatggcacag----------
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G076723_T01 (Zea mays), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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GGTGGAGGTCCTCGACCTCCTCGGCGCCAAGGAGATCGCCGTGCGCGCATGGGACCAGTCGCTCAACACCCAGCCCGAGAGGCTCATATGGAACCTCATGgtacattgtgtacatacatatatatactgacaag------------------------------------------------------------------
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G428027_T01 (Zea mays), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcaca----ttttgacgcgtgtcc-tcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag--------------------
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CGTCGAGGTGCTCGACGTGCTCGGGGCCAAGGAAATCGCCGTCCGCGCCTGGGACGAGGCCATGAACACCCAGCCGGAGAAGCTCATCTGTAACCTCATGgtgagttaccgcttcatcgtgcttcctttccggtggcttcgccgtcggtccgtccgatgcttgtcttccacggctgt-gttagattaaatgcacgtgtggcttgtccgttcctgcgcgcgcgcag
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA14G33480.1 (Glycine max), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttc-tatccctgtctcccttcaatca--cattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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GGTGGAGGTGATGGACTTGCTTGGGACCAAGGAGATTGCAGTTCGAGCTTGGGATGAAGGCCTCAACACCCAGCCTGAACACCTCATTTGGAATGTTATGgtacgaacacacctctgacaatgttgattgagttatttttac-tgtggaacggtctctgtacctgtgtgctcttttacaaattatatatgaactatttatt--
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G11430.1 (Glycine max), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttc-tatccctgtc---tcccttcaatc-acattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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GGTTGAGGTTTTGGACCTGCTCGGAGCCAGGGAGATTGCGGTGCGTGCTTGGGACGAGGCCCTCAACACCCAACCTGAAAAGCTCATTTGGAATGTTATGgtacgttcctgtctctgccacattcttttaattgaaattttaactttaattaggcctctgaaatttg-atagg--attgttaactacaattacaatgcacgta--
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G02510.1 (Glycine max), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacattttgacgcgtgtcctcttc-cttatgtctgtagaggtaattgtttggtcccaacct-cccgtgggttag
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GGTGGAGGTGCTTGACCTACTTGGGGCCAAGGAGATTGCGGTTCGAGCTTGGGATGAAGGTCTCAACACTCAGCCTGAACACCTCATTTGGAATGTTATGgtacgaatacttttttaagaaatttgttcttttttttatcaataaaaattaaatttaataccagagaatttattattttcacatatcgtactcatcaatt--
upper sequence: Vv18s0001g03910.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA14G33490.1 (Glycine max), 5'ss of exon 3
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttc-tatccctgtctcccttcaatcacattttgacgcgtgtcc----tcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
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AGTGGAGGTGATAGACCTGCTTGGGACCAATGAGATTGCTGTTCGAGCTTGGGATGAAGGCCTCAACACCCAGCCTGAACACCTCAATTGGAATCTTATGgtacctacacatctctgagaaacttcgatcattttacaaactatgaacaaaatatgtttaatttctgtattcttttttcctttgtt--aaataatcaagact---Mapped 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|161714940|gb|FC063600.1|FC063600EST: GGGATGAGACACTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATG GGAATGATGAACAACTGCTGGTTCAGAGTAAAAACAAATGTGTGCAAGCGT
genomic: GGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttcta ... aattatgcagGGAATGATGAACAACTGCTGGTTCAGAGTAAAAACAAATGTGTGCAAGCGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTGGAGGTGCTGGATCTCATTGGTGCCAAAGAGATTGCAGTTCGAGCCTGGGATGAGACCCTCAACACCCAGCCCGAGAAGCTCATCTGGAACGTCATGgtatgttctatccctgtctcccttcaatcacattttgacgcgtgtcctcttccttatgtctgtagaggtaattgtttggtcccaacctcccgtgggttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctccc