Sequence
atgc intronic sequence ATGC exonic sequencegtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G47630.1 (Glycine max), 3'ss of exon 2
gtaaattttgccc-cctttgtg-ttgtgtaactttggaggctc---atctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
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gtataacatactttcctctgtaattttgtatgttcaataattttggatgttttgtttatgcagttgcattttaccaccttaattttt----tttttttttttaatttcacagCTAAAGTTTCCATCAGCACTTGCATCTTTTGATCAAATTACCAACTGTGCAAAAGGAAAGAGAATAGCATTGTTTCTGGATTATGATGGAACTCTTTCAC
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G36570.1 (Glycine max), 3'ss of exon 2
gtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
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----gtattacatacttctcttttggttcttttctgaatttctctatgtt-------taggtggctatttatgctatttttttttcatatttgtta--atttcacagCTAAAATACCCATCAGCACTTACATCTTTTGATCAAATCACAAACTATGCAAAAGGGAAAAGAATTGCGTTGTTTATGGATTATGATGGAACTCTTTCAC
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G13880.1 (Glycine max), 3'ss of exon 2
gtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcc---tgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
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----gtataacatactttcctctgtgtaatcttttatgttcaac--------aatttttgatgttttgtttatgcagtttcatttggccaatctttttttaatttcacagCTAAAGTTTCCATCAGCACTAGCATCTTTTGATCAAATTACCAACTGTGCAAAAGGGAAGAGAATAGCATTGTTTCTGGATTATGATGGGACTCTTTCAC
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G51460.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
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----gtcagtcccttactgtcctttttttcatctgaaaat-atgtgccgttgttttgatgttgatagtcttctttttgttttgttttataatcctgt--tttagCAGCTCAAGTATCCATCAGCTCTTACCTCTTTTGAGAAAATCATGAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTT---
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G51460.2 (Arabidopsis thaliana), 3'ss of exon 1
gtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
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----gtcagtcccttactgtcctttttttcatctgaaaat-atgtgccgttgttttgatgttgatagtcttctttttgttttgttttataatcctgt--tttagcagCTCAAGTATCCATCAGCTCTTACCTCTTTTGAGAAAATCATGAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCMapped 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|110365313|gb|EC928101.1|EC928101EST: ACACTGTGCTTGCATCAACTGACACTGATGTTACTTACCGCACCTGGCTG CTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCC
genomic: ACACTGTGCTTGCATCAACTGACACTGATGTTACTTACCGCACCTGGCTGgtaaattttg ... gattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
gactgac putative branch site (score: 2)
ttcctgccctcttttc putative PPT
ttttctt 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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gtaaattttgccccctttgtgttgtgtaactttggaggctcatctttgatggaaccctagatggctgactgacttagttcctgccctcttttcttgtgattttgcagCTTAAGTATCCATCAGCACTTAAATCTTTTGAGCAAATCACGAACTATGCCAAGGGAAAAAGAATAGCATTGTTTCTGGACTATGATGGGACTCTCTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA