Sequence
atgc intronic sequence ATGC exonic sequence...ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 8
-------------------------------------------ctctagaccagct-agctcatgtccatttgaatg--cttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgt----tctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
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gtacgtataatgttctatgcctagttttagtttaccatgacatcttggcataagttcatgtgatctacaattagttgttctcaagaaccaagctagagtgtctttctaaaattgacgattcaatattaacaccatcttatctacttacagGTTTTTACTGCAGCTGCTGCTGATGATCGAAAAAATATTGTTTTGTTGGCATTTGAAACCATGGAAAAGATTGTTCGGGACTATTTCCCTTACATAACTG
upper sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 8
-ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
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cttcctaagcaagaagaaaatgcacatgtcatttgttagcatttgtgagttgagacaatggaacaatcttgacttatcttgcagtgtt-tttggttctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTGAATTTTTTCCTTATATTACTG
upper sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 9
-ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
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cttcccaagcaagaagaaaatgcacatgtcatttgttagcatttgtgagttgagataatggaacaatctttacttatcatgcagtgtt-tttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
upper sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------------------------------------------------------ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatt----tcttgcttctcacatgat----------gctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
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gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAGMapped 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|161713726|gb|FC063751.1|FC063751EST: TCCTTAGCCGTGTGAATAATGTGAAATCTGGCTGGAAAAGTGTTTTTATG GTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCC
genomic: TCCTTAGCCGTGTGAATAATGTGAAATCTGGCTGGAAAAGTGTTTTTATGgtatgttaat ... ctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
ttctcac putative branch site (score: 2)
ctgttct putative PPT
aaatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatttcttgcttctcacatgatgctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - -ccagcta
- - - - - - - - tcatgtc
- - - - - - - - - - - - - - gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgctg