Sequence
atgc intronic sequence ATGC exonic sequencegtatgttgcttaatctctattctcttagtgttagcttctgttctatgggaaatctaagcctttcaactgattttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os08g42600.2 (Oryza sativa), 3'ss of exon 14
gtatgt-tgcttaatctctattctcttagtgttagcttctgttctatgggaaatct------aagcctttcaactgattttg-aacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
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gtaactgcactttcttttcagtgtttcaagaattttttatgtttaaatcgcaattattctgaaagtgtgtttactcttatggcatcagAAAACAGGGGAGGACCATGTTGACATTATCACTTTCTACAACGAAGTATTTATTCCTACTGTGAAACCTTTGCTGGTTGAGCTAGGGTCTGGTACTAGTC
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G016997_T01 (Zea mays), 3'ss of exon 14
--gtatgttgcttaatctctattctcttagtgttagcttctgttctatgggaaatctaagcctttcaactgattttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
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gttagttctgtcttgtttttagcttttaagaatt---tcgcgatgagttggaagtttatatgactgaattatatcctgccagAAAACAGGAGAAGATCATGTTGATATTATCACTTTCTACAATGAAGTATTTATTCCTGCTGTCAAGCCTTTGTTAGTGGAGGTTGGACCTGGTGCTAGTC
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA15G36890.1 (Glycine max), 3'ss of exon 14
gtatgttgcttaatctctattctcttagtgttagcttctgttctatgggaaatctaagcctttcaactgattttga-----acagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
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gtatgcaactgaaggtcaaaattcaatgcttatgtttaacttttctgagaattgtta--ctcacaactgatctgaatgaaaacagAGAACAGGACAGGATCATGTTGACATCATTACCTTTTACAATGAAATATTCATTCCTTCTGTAAAGCCACTGCTGGTTGAACTTGGCCCTGCTGGACCAA
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G12280.2 (Arabidopsis thaliana), 3'ss of exon 14
gtatgttgcttaatctctattctcttagtgttagcttc--tgttctatgg-gaaatctaagcctttcaactgattttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
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gtatat-atacactcttaaccttatgctgaaaagtttctttactcggtggagaagactaaatttgtgacaatgacttgaacagAGAATAGGGCCAGATCATGTTGACATCATCACATTCTACAATGAAATATTTATTCCTGCCGTAAAGCCGCTGCTGGTGGAGCTAGGTCCTGTAAGAAACGMapped 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|110710388|gb|EE086681.1|EE086681EST: AAATTTTCCGTAGTGTGTTTGTTGATTGGTCATCAGCACGCCGCAATGGA AAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTT
genomic: AAATTTTCCGTAGTGTGTTTGTTGATTGGTCATCAGCACGCCGCAATGGAgtatgttgct ... ttttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtgttagcttctgttctatgggaaatctaagcctttcaactgattttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
aactgat putative branch site (score: 3)
aaatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttgcttaatctctattctcttagtgttagcttctgttctatgggaaatctaagcctttcaactgattttgaacagAAAACAGGGAAGGAACATGTTGATATTATCACATTTTACAATGAAATTTTTATTCCGGCTGTAAAGCCGCTGTTAATGGAGATTGGGCCTGGTGGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA