Sequence
atgc intronic sequence ATGC exonic sequencegtaccttgttgaactcattaaatattgcaaggcctgaaatttataatagataagaaaaacacagaagttctcaatttctgcaagagaactttcaagttggtgttggcatgccaggatggttttgaatgtaaagtactacatgtcaagaatttgtttgtactgaaattgacatttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 18
gtaccttgttgaactcattaaatattgcaaggcctgaaatttataatagataagaaaaacacagaagttctcaatttctgcaagagaactttcaagttggtgttggcat-gccaggatggtt---ttgaatgtaaagtactacatgtcaagaatttgt-ttgtactgaaat---tgacatttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC
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---------------------------------------------------------------------------------------ccttttaatcatgtgattgtacagccatggtacttggatcagtagcatgggaatatagtcagattctccgtactgtactgaaatgactgacgtgtggcagGGAACAAGTAGGCCCGCTCACTACCATGTCCTCTGGGATGAGAACAATTTCACAGCAGACGAAATGCAAACACTGACAAACAACCTTTGCTACAC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 19
gtaccttgttgaactcattaaatattgcaaggcctgaaatttataatagataagaaaaacacagaagttctcaatttctgcaagagaactttcaagttgg-tgttggcatgccaggatggttttgaatgtaaagtactacatgtcaagaatttgtttgtactgaaattga--catttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC
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-----------------------------------------------------------------------------cttctcataaccatacaaataggatattggggt---agggtg--taaagaaatgacatgttaaagaataatatttgtatcggatttacattaatgcaatttacagGGTACAAGTAGACCAGCTCATTATCATGTTCTGTGGGACGAGAACAATTTCACTGCTGATGAGATCCAATCTCTGACCAACAACTTGTGCTACAC
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA05G08170.1 (Glycine max), 3'ss of exon 15
gtaccttgttgaactcattaaatattgcaaggcctgaaatttataatagataagaaaaacacagaagttctcaatttctgcaagagaactttcaagttgg-tgttggcatgccaggatggttttgaatg---taaagtactacatgtcaagaatttgt-ttgtactgaaattgacatt--tggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC----
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--------------------------------------------------------------------------------------accatacaaatagggtattggtgacttgggatagggtgtaaagaactaagatgttaaaagaataatttttgtatcagatttacattaatgctatttacagGGTACAAGTAGACCAGCTCATTATCATGTTCTGTGGGACGAGAACAATTTCACTGCTGATGAGATCCAATCTCTGACCAACAACTTGTGCTACACGTAAMapped 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|33407837|gb|CF213464.1|CF213464EST: GCCATCCCAGTGAGTTTGACTTTTATCTATGCAGTCATGCAGGAATCCAG GGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTT
genomic: GCCATCCCAGTGAGTTTGACTTTTATCTATGCAGTCATGCAGGAATCCAGgtaccttgtt ... catttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtaaagtactacatgtcaagaatttgtttgtactgaaattgacatttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC
aattgac putative branch site (score: 3)
aatttgttt 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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gtaccttgttgaactcattaaatattgcaaggcctgaaatttataatagataagaaaaacacagaagttctcaatttctgcaagagaactttcaagttggtgttggcatgccaggatggttttgaatgtaaagtactacatgtcaagaatttgtttgtactgaaattgacatttggcagGGGACCAGCCGACCCGCTCATTATCATGTTCTCTGGGATGAGAACAACTTTACAGCAGATGAGATCCAATCTTTGACGAACAACCTCTGTTACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC