Sequence
atgc intronic sequence ATGC exonic sequencegtatggagcaaatgattggaaagtgtttattctcttttagattccaatttaaaattggactttcttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G147332_T01 (Zea mays), 3'ss of exon 6
-------------------------gtatggagcaaatgattggaaa--gtgtttattctcttttagatt--ccaatttaa--aattggactttcttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
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gtttggcttagaaaaaaccgacacaatatatatcta-tgatcagagatagtaactaatagatgattgatctatcaatttaattgattggaaatatgt---tcagGTGACAACTTCAATTTACAATCTCATATTGGGCAAGCTATATTGCGATCACTATGGTACTATGCGCATTCAAGGTAATCGTGAGTATTCATGTAAGCTTA
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G157172_T01 (Zea mays), 3'ss of exon 7
--------------------gtatggagcaaatgattggaaagtgtttattctcttttagattccaatttaaaattggactttc--ttctat-----cagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
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ttaaatttataatgtttgtcttaggaaaaacctagttaatatatttatgatcagaggtagtgactaatagatgattgacctatcaatttaatatgttcagGTGACAACTTCAATTTACAATCTCATATTGGGCAAGCTATATTGCGATCACTATGGTACTATGCGCATACAAGGTAATTGTGAATATTCATGTAAGCTTA
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ15167 (Selaginella moellendorffii), 3'ss of exon 6
gtatggagcaaatgattggaaagtgtttattctcttttagattccaatttaaaattggactttcttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
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-------------------gtagt-tcaaacggcatttggatt--ggtctaacaccgtactt------gacagGTGACCACATCAATTTACAATCTCATACTAGGAAAGCTTTACTGTGATCACTACGGCACAATGCGCATTCAAGGAAACCGCGACATGTCCTGCAAGCTTAMapped 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|161717040|gb|FC065900.1|FC065900EST: GCGCTTTGACTTTGGAATTTGATGATGGAGAAACTTTTCAATGGAGTAAG GTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCAC
genomic: GCGCTTTGACTTTGGAATTTGATGATGGAGAAACTTTTCAATGGAGTAAGgtatggagca ... cttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCAC
EST:
gi|161719223|gb|FC065737.1|FC065737EST: GCGCTTTGACTTTGGAATTTGATGATGGAGAAACTTTTCAATGGAGTAAG GTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCAC
genomic: GCGCTTTGACTTTGGAATTTGATGATGGAGAAACTTTTCAATGGAGTAAGgtatggagca ... cttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaagtgtttattctcttttagattccaatttaaaattggactttcttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
ctttcttctatc CT-rich tract
ttttagattccaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggagcaaatgattggaaagtgtttattctcttttagattccaatttaaaattggactttcttctatcagGTAACAACATCAATATACAATCTTATATTGGGAAAGTTGTACTGTGATCACTATGGTACAATGCGCATACAGGGAAATCGTGAGTATTCATGTAAGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA