Sequence
atgc intronic sequence ATGC exonic sequence...gatggtcttttataggatttaaataaatttggggaggatgaaatttgtatgtagtgtttttgtcttctgatctaagttttatttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 2
gatggtcttttataggatttaaataaatttggggag--gatgaaatttgtatg-tagtgtttttgtcttctgatctaagttttat--ttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
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-----ctctatttaatgtttgttcctgtctgataatttgacacccttggtacggtgatgaaattaatttatgttttcagttacatcgttcctttcttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT
upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 2
-----gatggtcttttataggatttaaataaatttggggaggatgaaatttgtatgtagtgtttttgtcttctgatctaagttttatttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
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atacacttgtaattgtttgggaaattgattctcatgcctaacagaaactgtgtgtgt-gtgtgcaagcgtgctaatataatttctatcaatttt---gttt-cagTCTAGAGGTCGGATCTCTATGGCTGTTGCAGTTAACGTTTCTCGGTTTGAAGGCATACCTATGGCGCCTCCTGATCCAATTCTAGGAGTTTCTGAGGCAT
upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 2
-gatggtcttttataggatttaaataaatttggggaggatgaaatt-tgtatgtagtgtttttgtcttctgatctaagttttatttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
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taaaagtagttagtgagaattaag-gaatgtgaggacacagaaactgtgtttgt-gtgtttgtgcatgcatactaatataatgtctatcaattttgtttcagTCTAGAGGTCGGATCTCTATGGCTGTTGCAGTTAATGTATCTCGGTTTGAAGGCATACCTATGGCTCCTCCTGATCCAATTCTCGGAGTTTCCGAGGCGTMapped 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|161712612|gb|FC062214.1|FC062214EST: GTAGTTCTTTTTTGAGGAAAGAGAAAAGAAACCCCTTCATGAAGACCAAG TCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAA
genomic: GTAGTTCTTTTTTGAGGAAAGAGAAAAGAAACCCCTTCATGAAGACCAAGgtatgtattc ... tggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAA
EST:
gi|352787010|gb|FQ476043.1|FQ476043EST: GTAGTTCTTTTTTGAGGAAAGAGAAAAGAAACCCCTTCATGAAGACCAAG TCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAA
genomic: GTAGTTCTTTTTTGAGGAAAGAGAAAAGAAACCCCTTCATGAAGACCAAGgtatgtattc ... tggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatgtagtgtttttgtcttctgatctaagttttatttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
ttctgat putative branch site (score: 3)
ttttatttatttttt putative PPT
ttctgatctaagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatggtcttttataggatttaaataaatttggggaggatgaaatttgtatgtagtgtttttgtcttctgatctaagttttatttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - ggggagg
- - - - - - - - - - - - - - - - - - - - - - -tgtatgt