Sequence
atgc intronic sequence ATGC exonic sequence...tagtcagtctcataacttaagcaacctttgagttttatttttattgttaagagtctcaagtttatgttctgacatccatagtacataatttattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12780.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 4
tagtcagtctcataacttaagcaacctttgagttttatttttattgttaagagtct----caagtttatgttctgacatc-catagta-cataatt-tattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
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------ggttcagtcttaaaaaaacccttggtatatattggt-ttgtgaatgctctggcacatgcttgaattgtttctttacgtgagatcgcaattgccctttgcagGTGAACCAAAATCTTATGGATTTGGCTGGTTCAAAGGCATTTTTCATGCATTGCTTACCGGCGGAAAGAGGGGTGGAGGTGACTGACGAAGTTATTGAAG
upper sequence: Vv18s0001g12780.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G75330.1 (Arabidopsis thaliana), 3'ss of exon 4
tagtcagtctcataacttaagcaacctttgagttttatttttattgttaagagtctca--agtttatgttctgacatccatagtacataat-ttattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
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--gtaaacataa--gtttaatctggctt--agttttggtgcaatgctcggtactcttactaaattacactgcttcacgctta-catattatgttcaattgcagGTGGATGAAGCTCTGATGAAGTTGGCGGGTCAAAAAGCCTATTTCATGCATTGTTTGCCTGCAGAGAGAGGAGTTGAGGTGACCAATGGAGTCGTAGAGG
upper sequence: Vv18s0001g12780.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S189_99V6.1 (Physcomitrella patens), 3'ss of exon 9
tagtcagtctcataacttaagcaacctttgagttttatttttattgttaagagtc--tcaagtttatgttctgacatccatagtacataatttattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
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--atatgttttatgttttaatttttcttttttttcttttggcatgctcgtaagttatttatcctagtgacccttgaaaaagaccactcttttctgacgacagGTGAACGAGGCTTTGATGAAAGCTGCCGGACCTCAAGCCTATTTCATGCATTGTCTTCCAGCTGAAAGAGGAGTGGAGATCACTGACGGTGTTATTGAGGMapped 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|110723485|gb|EE100851.1|EE100851EST: GGCAAAAGGAAGAGGCCTCATATCGCCGGCAAGTGTTTCAAGGATTTCAA GTGGATGAACCCCCTAATGAA-TTAGCCGGGCCAAAAGCCTATTTTC-TGC
genomic: GGCAAAAGGAAGAGGCCTCATATCGCCGGCAAGTGTTTCAAGGATTTCAGgtacctgttg ... tattctgcagGTGGATGAACCCCTTA-TGAAGTTAGCCGGGCCAAAAGCCTATTT-CATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaagagtctcaagtttatgttctgacatccatagtacataatttattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
ttctgac putative branch site (score: 2)
tttattct putative PPT
atagtacataatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtcagtctcataacttaagcaacctttgagttttatttttattgttaagagtctcaagtttatgttctgacatccatagtacataatttattctgcagGTGGATGAACCCCTTATGAAGTTAGCCGGGCCAAAAGCCTATTTCATGCATTGTTTACCGGCTGAAAGAGGCGTGGAGGTGACTGATGGGGTTCTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - cagtctc
- - - - - - - - - - -caacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatcca