Sequence
atgc intronic sequence ATGC exonic sequencegtataaattgaaaattagctccaagacatgaataatgactattcgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os04g46940.1 (Oryza sativa), 3'ss of exon 5
--------gtataaa---ttgaaaattagctccaagacatgaataatg-actatt-cgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
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gtgagctatcataaaatcttttgcactgtctcctggtcttttttcccgtaccgttatttggttattcaca---ccctccgatttttttttactcttgcagTCGGCCGGAAGGACCGTGGCAATGGTTGGTGATGGAATCAACGATTCTCCAGCGCTTGTATCAGCCGACGTTGGCCTGGCGATTGGCGCAGGCACTGACG
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 5
-----------------------------gtataaat-tgaaaattagctccaagacatgaata--atgactattcgtgattattcc--caatgctgtaga-atcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
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gtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatg-gcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA19G32190.1 (Glycine max), 3'ss of exon 6
-----------------gtataaattgaa-----aattagctccaagacatgaataatgactattcgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
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ttttacactgaaagtgtatataaattaaactcatacttaatcctacatctctaacatatattacctgtggttaac----atattg-agtaccctttttttgtt----agGCTTCTGGGTGCAGGGTGGCTATGGTGGGGGATGGTATCAATGACTCACCAGCACTTGTGGCAGCAGATGTAGGAATGGCAATTGGTGCTGGTACAGACA
upper sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G63440.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataaattgaaaattagctccaagacatgaataatgactattcgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
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---gtacttgagtaaaagctccacacta--aatgttaaaaagttcacatatatggaattgata-aaagcaatgaatatatattgcagGCTGCGGGACATGTTGTGGCAATGGTAGGTGACGGAATCAATGACTCACCGGCTCTCGTGGCAGCGGATGTAGGTATGGCGATAGGTGCAGGAACAGACAMapped 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|110728350|gb|EE103842.1|EE103842EST: TCGCTGAAACCAAACCTGAGCACAAAGCAGAGAAAGTGAAGAATTTACAG GCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCA
genomic: TCGCTGAAGCCAAACCTGAGCACAAAGCAGAGAAAGTGAAGAATTTACAGgtataaattg ... tattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgactattcgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
tcttgtctttattcc CT-rich tract
tgattatt 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
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gtataaattgaaaattagctccaagacatgaataatgactattcgtgattattcccaatgctgtagaatcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG