Sequence
atgc intronic sequence ATGC exonic sequence...gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os06g49110.1 (Oryza sativa), 3'ss of exon 9
-gctgtttggatattgttggtaa-actttgttctcactcatttccggcaatcatatag-tcatcatttttttaaca-tgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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gtacatacctatgtcactgattccatcatattatttctagtatcccatagcactgaaccttcttgtaagttaaataatgcatatgtcaactatgct-tatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G42670.1 (Glycine max), 3'ss of exon 9
-----gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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agatggattggtggatgttgttattaagcttcatacac-ctcctttttg--agtcttgtatataatatggtcctaa-acaatgccatttatct-attgccaacagGTATGCAAGTTCTTTTTATGGTCCATTTAGAGAGGCACTAGACTCAAACCCCCGGTTTGGAGACAAGAAAAC
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G12110.1 (Glycine max), 3'ss of exon 8
-----gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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agatggattggtggatgtttttattaagcttcatccacctcctttttatg---tcttgtatataatatggtcctaa-acaatgccatttatct-actgccaacagGTATGCAAGTTCTTTTTATGGTCCATTTAGAGAGGCACTAGACTCAAACCCCCGGTTTGGAGACAAGAAAAC
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S450_21V6.2 (Physcomitrella patens), 3'ss of exon 8
gctgtttggatattgttggtaaactttgttctcactcatttccggcaatc--atatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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actccagtgaaacagtcaacaa-ttttgcacagttcaatcaacaatctacgaagatgcctgcgacatgtctaata-gtcatgtcatgttcgtgttggtgcagATATGCAAGTGCCTTTTACGGGCCCTTCAGAGAAGCACTGGACTCCAATCCCCGTTTTGGTGACAAGAAGAC
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ10919 (Selaginella moellendorffii), 3'ss of exon 8
gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtca-tcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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--------------------------------------------gtaactctttcgtcccttctctcttttttggatctgacgcgccttcgctgttctcagGTATGCAAGCGCGTTCTATGGTCCATTCAGAGAAGCTCTGGACTCAAATCCCCGTTTTGGAGATAAGAAAAC
upper sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ25898 (Selaginella moellendorffii), 3'ss of exon 8
gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtca-tcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
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--------------------------------------------gtaactctttcgtcccttctctcttttttggatctgacgcgccttcgctgttctcagGTATGCAAGCGCGTTCTATGGTCCATTCAGAGAAGCTTTGGACTCAAATCCCCGTTTTGGAGATAAGAAAACMapped 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|110379323|gb|EC944509.1|EC944509EST: CTTGATGCTGAAGGCTTTCAACATGTGTCTATCATGTCCTATACAGCAAA GTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAA
genomic: CTTGATGCTGAAGGCTTTCAACATGTGTCTATCATGTCCTATACAGCAAAgtaatgtgtc ... ttgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAA
EST:
gi|110373793|gb|EC938150.1|EC938150EST: CTTGATGCTGAAGGCTTTCAACATGTGTCTATCATGTCCTATACAGCAAA GTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCC
genomic: CTTGATGCTGAAGGCTTTCAACATGTGTCTATCATGTCCTATACAGCAAAgtaatgtgtc ... ttgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatcatatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
cttcatt CT-rich tract
atcatttttttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgtttggatattgttggtaaactttgttctcactcatttccggcaatcatatagtcatcatttttttaacatgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- tgtttgg
- - - - - - - - -ggtaaac
- - - - - - - - - - - - - - - ctcactc
- - - - - - - - - - - - - - - - - - - - - - gcaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacttc