Sequence
atgc intronic sequence ATGC exonic sequenceCCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 1
-------CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcact-actcataaac-cctaatttcttctttccttcccca-------cccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta
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CGGCGGCGGCGGCCATGTCGACGGCCCGCGTCTACGCCGACGTGAACGTGCACCGCCCCAGGGAGTACTGGGACTACGAGGCCCTCGCCGTCGAATGGGGgtaagaactgattccttcccacctacgcctcgccgtgctaccgtgtgattgtcccccccccccccccccccactcgtgtcgtcgtcgcctagaata-acgt--------
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA05G22250.1 (Glycine max), 5'ss of exon 1
-------CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttct-ttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta--
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CCACTCGCCCAGCCATGTCCAAGGCGCGTGTCTACACCGATGTCAACGTTCTCCGCCCCAAAGAGTACTGGGATTACGAGTCTCTCACCGTTCAATGGGGgtaataat--cttcccaaccctgatatattttgtggatttctcgtcttaatttgtttccggagctttctgttatgttatgcttcgattta-gacacgattaac
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 1
-------CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtt-tccatgtc-cctgtta--
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CCAATCGTCGAGCCATGTCCAAGGCACGCGTCTACACCGATGTCAATGTTCTTCGCCCCAAAGAGTACTGGGATTACGAGTCCCTCACCGTTCAATGGGGgtaataa-tgttcccaa-ccctaattt--tgtttctggagccttctgttatgctcagattagacacagttaacaatcaatagattgtatatttcgcgttttagg
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 1
-------CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttctttccttccccacccctttttccactattgat--ctcgtgttatagtcaacatgtttccatgtccctgtta---
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CGACGCGCCAAACCATGTCGAAGGCGCGTGTCTACACAGATGTCAATGTCCTTCGCCCTAAAGAGTATTGGGATTACGAGTCTCTCACCCTTCAATGGGGgtaatg-----ttccgaaccctaatttttatgttgtttttttcttctgatccccaaagtgaacaattcacatgaagggggattttattgtatgatcttagagtct
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 1
-------CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatg--tttccatgtccctgtta---
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CGACGCGCCAAATCATGTCGAAGGCGCGTGTCTACACCGATGTCAATGTCCTTCGCCCCAAGGAGTATTCGGATTACGAGTCTCTCACCCTTCAATGGGGgtaatg-----ttccgaaccctaatttttatgtttcttttatttttttctgatccccaaagtgaacaatccacaatgaaggggaattttattgtagatagtttct
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 2
-----CCAGAT--CATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactac--tcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta
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GACGGCCAGGTGTTATGTCCAAGGCCCGGGTTTACACAGATGTGAATGTCCAACGTCCGAAAGATTATTGGGACTACGAGGCCCTCACCGTCCAATGGGGgtaagttccatggctattcgattcactccctttatgcttccttaattccaatgttctacagagatatctgggcacggtgagga-atcatcgactagaaacc-
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 5'ss of exon 2
-----CCAGAT--CATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaac-cctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta
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GACGGCCAGGTGTTATGTCCAAGGCCCGAGTTTACACGGATGTGAATGTTCAGCGGCCGAAAGATTATTGGGATTACGAGGCTCTTACCGTTCAATGGGGgtatgctccgttactatcttcctcgctgcatttatgattccgtttccctaggtctcttagggatgtc-tctacttgacgaagctctttcgtgtaggaattcMapped 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|71860686|gb|DT009741.1|DT009741EST: CACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGG GGATCAAGATGACTATGAGGTTGTTCGAAAAGTTGGAAGGGGAAAATACAG
genomic: CACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcacta ... ttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCAGATCATGTCCAGTGCTCGAGTCTACGCAGACGTCAACATTCACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcactactcataaaccctaatttcttctttccttccccacccctttttccactattgatctcgtgttatagtcaacatgtttccatgtccctgtta
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