Sequence
atgc intronic sequence ATGC exonic sequence...gaacataacctttgtaggattacatattgttttctgataggcttcttaggattacagttttgagtgggtcctaatataattttcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 10
gaacataacctttgt--aggattacatattgttttctgataggcttcttaggattacagttttgagtgggtc-ctaatataattt-tcgttaatgca-ttttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA---
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-----taatttttgtccgagtttggcagacatttgatctggtgtatgtttataatgctgtttaaaataggtttctaacatggtttcttctgaatgcacttttaagGTTTCCAAAAACCAGACTGGGAGAAAGAGAAAGCAGCCTG---CATCTTCTGGTCCTGCCAATAGTTCTGGAACAGCTAATACAGCTGGTCCATCTCCAAGTT
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G07460.1 (Glycine max), 3'ss of exon 10
---gaacataacctttgtaggattacatattgttttctgataggcttcttaggattacagttttgagtgggt-cctaatataattttcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA
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catgattgtaaatttc-tgtccctgattatggtgattgtaaatttatcctacga--agagtaagaaataggttcctaacatggttatc-tgaatgcactttaagGTTTCAAAAAACCAGATTGTGAGAAAGAGAAAGCAGCCTGGATCCTCATCAGGTCCTGCCAATAGTTCAGGAACGGCAAATACAACAGGTCCATCACCAA
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G07580.1 (Glycine max), 3'ss of exon 10
gaacataacctttgtaggatt------acatattgttttctgataggcttcttaggattacagttttgagtgggt-cctaatataattttcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA
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gtaaatttctgtccctgaatttgacagacatctgatttttttata----ccttacga--agagtatgaaataggttcctaacatggttatc-tgaatgcactttaagGTTTCAAAAAACCAGATTGGGAGAAAGAGAAAACAGCCTGGCTCCTCGTCAGGTCCTGCCAATAGTTCAGGAACAGCAAATACTACAGGTCCATCACCAA
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G30910.1 (Glycine max), 3'ss of exon 10
gaacataacctttgtaggattacatattgttttctgataggcttcttaggattacagttttgagtggg--tcctaatataattt-tcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA---
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atttatgtccctgaatttggcagacatt-tgatctggt--gtatgtttataatgttgtctaaaatagggttcctaacatggtttcttctgaatgcactctaagGTTTCCAAAAATCAGACTGGGAGAAAGAGAAAGCAACCTG---CATCTTCTGGTCCTGCCAATAGTTCTGGAACAGCTAATACAGCTGGCCCATCTCCAAGTTMapped 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|110711263|gb|EE087569.1|EE087569EST: GCATCACTGTGGATGGTAGCATGTCAAATTCTTTTCGAGGAAATGATCAG GCTTCAAAAAACCGGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCT
genomic: GCATCACTGTGGATGGTAGCATGTCAAATTCTTTTCGAGGAAATGATCAGgtctgttcca ... gcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaggattacagttttgagtgggtcctaatataattttcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA
taatataattttcgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaacataacctttgtaggattacatattgttttctgataggcttcttaggattacagttttgagtgggtcctaatataattttcgttaatgcattttaagGCTTCAAAAAACCAGACTGGAAGAAAGAGAAAGCAGCCTGTTTCATCTTCTGGTCCAGCCAATAGCTCAGGAACTGCAAACACAGCAGGACCCTCCCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- -cataacc
- - - - - - - - - - - - - - - - -ctgatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagtggg