Sequence
atgc intronic sequence ATGC exonic sequence...gaaaaaaaaagaagaaaagtgttggtttcaatggttctgtcagatcatgtactttctttggtggataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g65230.1 (Oryza sativa), 3'ss of exon 6
gaaaaaaaaagaagaaaagtgttggtttcaatggttctgt--cagatcatgtactttctttggtggataacatatttactgt-tgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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--agcaagctttagagtgctgtgttttgtgttgatactgtatgagttattatgatatcttta-tacataatttctctgatgaacctttatctgttcttgacagAAATGACTTATGGGCATTGGGGTGTACTCTATATCAATTGCTTTCTGGCTCTTCACCATTTAAAGATGCCAGTGAGTGGTTAATTTTCCAGAGAATTATA
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G097821_T02 (Zea mays), 3'ss of exon 6
gaaaaaaaaagaagaaaagtgttggtttcaatggttctgtcagatcatgt-actttctttggtggataacatatttact---gttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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-atttccaagagatgaatgcatgccttcaaactgcactttgtggtgatatgagcaaataatatagactcgacacttatttgtactatgaacttcat---cacagAAATGATTTATGGGCATTGGGATGCACACTGTACCAAATGCTTTCTGGCTCTTCGCCATTTAAAGATGCTAGTGAGTGGTTAATTTTCCAGAGAATCATT
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 6
gaaaaaaaaagaagaaaagtgttggtttcaatggttctgt--cagatc---atgtactttctttggtgg-ataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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------catgcaccgagtttcttcatttcttttgtttcataccaggtccctatataataacttttcttctgtgttttgtttccccccctcaaatatatcacaacagAAATGACCTTTGGGCACTTGGCTGCACATTATACCAAATGCTTTCTGGAACTTCCCCTTTTAAAGACGCAAGTGAATGGCTTATTTTTCAAAGAATTATA
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 6
gaaaaaaaaagaagaaaagtgttggtttca-atggttctgtcagatcatgtactttctttggtggataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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gcactgagtttcttcatttcttttgtttcataccaggtccctatataataacttttcttctgttttttgtttttttgccctcaaatatatatcaca-acagAAATGACCTTTGGGCACTTGGCTGCACATTATACCAAATGCTTTCTGGAACTTCCCCTTTTAAAGACGCGAGTGAATGGCTTATTTTTCAAAGAATTATA
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------------gaaaaaaaaagaagaaaagtgttggtttcaa----------tggttctgtcag--atcatgtactttctttggtggataacatatttactgttgtt----aacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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gtaagagttttgtgttagaacaaactttgaccactatgtgatgaatatatggagttttttttttttgaagtagtcttttagttatgtggattactacatatcctcttacttagaacaatttttctttggtatttctggaacttattcaaacagAAATGATCTCTGGGCACTCGGCTGCACTCTGTACCAAATGCTTTCAGGAACTTCCCCATTCAAGGATGCAAGTGAATGGCTGATTTTCCAAAGAATTATA
upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 6
gaaaaaaaaagaagaaaagtgttggtttcaat--ggttctgtcagatcatgtactttctttggtggataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
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-gtaagagttttctgtttctgtaatttgcgttttggttttgtggattgcgatgcctctcttactttgtacaatttctttggtactctgtggaacac---cagGAATGATCTTTGGGCTCTCGGCTGCACTCTCTATCAGATGCTTTCGGGGACTTCCCCATTTAAAGATGCAAGTGAATGGCTGATTTTCCAAAGAATTATAMapped 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|161717324|gb|FC068850.1|FC068850EST: GCTGCTTATGTCCCTCCAGAAGTTCTCAATTCTTCTCCTGCAACGTTTGG AAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAAC
genomic: GCTGCTTATGTCCCTCCAGAAGTTCTCAATTCTTCTCCTGCAACGTTTGGgtaagtcatt ... atacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtactttctttggtggataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
tgttaac putative branch site (score: 2)
ataacatatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaaaaaaaagaagaaaagtgttggtttcaatggttctgtcagatcatgtactttctttggtggataacatatttactgttgttaacttcatacatacagAAACGATCTTTGGGCACTTGGCTGCACTTTGTACCAGATGCTTTCTGGAACTTCTCCTTTTAAAGATGCAAGTGAATGGCTTATTTTCCAAAGAATTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
-aaaaaaa
- - - - - -aagaaaa
- - - - - - - - - gtgttgg
- - - - - - - - - - - - - - - - - ttctgtc
- - - - - - - - - - - - - - - - - - - - - gatcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgttgt