Sequence
atgc intronic sequence ATGC exonic sequence...tttctgtgagttgggttttgcagtatcttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaacttaaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G38120.1 (Glycine max), 3'ss of exon 2
tttctg---tgagttgggttttgcagtatcttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaacttaaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
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cttctgatttgaccagaaacctttcgtat---gattgattgtttaatttaaattaggcttgaatctttaaattgaaacttgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGTGTAGTACCAGATGGCATTGATGTGCACT
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G35480.1 (Glycine max), 3'ss of exon 2
tttctgtgagttgggttttgcagtat-cttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaa-cttaaatgta------cagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
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-------atgtttgcttttg-attataccagaaaccttttgtatgatttgttgtttaatttaaattaggcttgaatcttgaaattgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G08610.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------------------------------tttctgtgagttgggttttgcagtatcttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaacttaaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
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gtatatttcccatgtttatttttagaaccaaaaggtgattaattagaataattacattactttgccaaatattgctagttagtggatgatcaatctcaaaattttatttgattttcatttctgattttactagaa-agcttttatatgatttg---cttttatgccagacttgaagttgatatattga-tgtacatattcagGTTGAAGGAATCTTCAGAATTAATGCTGAAAATAGTCAAGAGGAGTTAGTAAGGGAACAATTAAATAGAGGGATTGTACCATATGGCATTGATGTGCACTMapped 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|33403330|gb|CF208957.1|CF208957EST: CAATACTCCTGCTTATGCAAAGACGCTTGTATGCACAAGGGGGCCTGCAG GCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTT
genomic: CAATACTCCTGCTTATGCAAAGACGCTTGTATGCACAAGGGGGCCTGCAGgtatgtgacc ... aaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgcatcagtctttccaattttaacagagatctaaggattgaacttaaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
ttttaac putative branch site (score: 2)
aattttaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctgtgagttgggttttgcagtatcttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaacttaaatgtacagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - -gagttgg
- - - - - - - - - tgcagta
- - - - - - - - - - - - - - - atgcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taacaga