Sequence
atgc intronic sequence ATGC exonic sequence...tggaagaatatcgtggcatttatgtgcctactatttgttgcaactgttgtcatattttgtaagacattgatgtctgttcttatctttttccttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G01770.1 (Glycine max), 3'ss of exon 4
tggaagaatatcgtggcatttatgtgcctactatttgttgcaactgt-tgtcatattttgtaag-acattgatg-tctgttcttatctttttccttctc---acagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
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------actactgttgagttattgattgtaattttgaatatatttatacaattttttttgtagttatattgatgctttgcttatattttctttctttttttgaaagAACAATGCAATCCTAGCACGCCGCCTACTAAATGGAGAGTTGGAACCTTCTAAAATATTGAATATGACACCCAATGAGTTGAAG
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G42920.2 (Glycine max), 3'ss of exon 4
----tggaagaatatcgtggcatttatgtgcctac-tatttgttgcaactgttgt-catattttgtaagacattgatgtctgttcttatctttttccttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
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agtaaccacaattaaggcaactttccaacatttgtgtatatgtt-tatctcttgcacttataatgtatga--ttgatata-gttctt--ttttttggtttttgcagAAAAATGCAGTGTTAGCACGCCGTCTATTAAGTGGAGAGTTGGAGCCTTCAAAAATATTAAATATGACACCCAATGAATTAAAG
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G37830.1 (Glycine max), 3'ss of exon 4
tggaagaatatc-gtggcatttatgtg-cctactatttgttgcaactgttgtcatattttgtaagacattgatgtctgttcttatctttttccttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
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-tcacctctatccatgttatttatacgattttttttttctttctgaagtgataatgatgatttgatgatttgtttatattctc-tttcttttgttttgacagAACAATGCAATCCTAGCACGCCGTCTACTAAATGGAGAGTTGGAACCTTCTATAATATTGAATATGACGCCCAATGAGTTGAAGMapped 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|110708855|gb|EE086872.1|EE086872EST: ATTTCCAGAAGTACAACCAAAAAATGCGACAGTTGGTGTTCAATCTCAAG AACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCA
genomic: ATTTCCAGAAGTACAACCAAAAAATGCGACAGTTGGTGTTCAATCTCAAGgttaggggag ... cttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCA
EST:
gi|37184086|gb|CF603440.1|CF603440EST: ATTTCCAGAAGTACAACCAAAAAATGCGACAGTTGGTGTTCAATCTCAAG AACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCA
genomic: ATTTCCAGAAGTACAACCAAAAAATGCGACAGTTGGTGTTCAATCTCAAGgttaggggag ... cttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtcatattttgtaagacattgatgtctgttcttatctttttccttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
cattgat putative branch site (score: 4)
tgtctgttcttatctt CT-rich tract
atattttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggaagaatatcgtggcatttatgtgcctactatttgttgcaactgttgtcatattttgtaagacattgatgtctgttcttatctttttccttctcacagAACAATCCACTATTAGCCAGGCGTCTACTAAATGGAGAATTGGAACCTTCAAAAATACTAAACATGTCACCTAATGAGTTAAAG
-ggaagaa
- - - - - - - - - - tatgtgc
- - - - - - - - - - - - - - - - - - -ttgcaac
- - - - - - - - - - - - - - - - - - - - - - tgttgtc