Sequence
atgc intronic sequence ATGC exonic sequence...agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 12
agcagaatctggatgatatggtgg-atcatttttcattgtgctggtta--aaccattttcccttt--ttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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----gaat-tatatatttttgtaccatttgatttggattcgttggttataaatcatgagaagtttgactgctaaagtatttcgttacttccgcatttacttatagGCATCACAACATTGGTGGGAGGTGGAACTGGACCAGCACATGGAACTTGTGCCACAACTTGCACCCCTTCACCATCTCACATGAAACTAATGCTACAGTC
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
--agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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ttagttaagtttcaaatatgatgtgtgtc-ttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatca-atatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G461569_T01 (Zea mays), 3'ss of exon 9
--agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttca----ttttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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ttagttaagtttcaa--atatgatg---tgtgtcttat-gtgccatgtgacccaggttagtcagtgatatacatgaaaactttaagttatatctatatttgtgtagGCATCACGACATTGGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCCAGCACCATCTCAATTGAAATTAATGTTGCAGTC
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G27840.1 (Glycine max), 3'ss of exon 9
agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctt----tttatcatcttcattttctttttccataaat-atatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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-----cttacatttctcacctcatctccttttccccagggtagatatcagcgtaggcagatgaatttgatggagtttaatgagtccttttgtactttgtatgtagGCATCACAACATTAGTGGGAGGTGGAACCGGACCGACTGCTGGAACACGTGCCACAACTTGTACACCAGCACCATCTCAGATGAAACTAATGCTGCAATC
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G10850.1 (Glycine max), 3'ss of exon 9
----agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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ctctcccctcatctcctt--ttccccagggcagatatcatcagcctatatatgcagatgaatttgatggagtttaacgagtccttatttactt--tgtatgtagGCATCACAACATTAGTGGGAGGGGGAACCGGACCGACTGCTGGAACACGCGCCACAACTTGTACACCAGCACCATCTCAGATGAAACTAATGCTGCAATC
upper sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 10
--agcagaatctggatgatatggtggatcatttttc-attgtgctggttaaaccat-tttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
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gcattgaaaaccagatt-tatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtccttttctgtat---tgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATCMapped 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|161720992|gb|FC070359.1|FC070359EST: CCATGTGCACTTTATATGCCCTCAATTGGCCTATGAAGCCATATCAAGTG GCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTG
genomic: CCATGTGCACTTTATATGCCCTCAATTGGCCTATGAAGCCATATCAAGTGgtgagatttc ... atatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
attttctttttccata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - ctggatg
- - - - - - - - - tggtgga
- - - - - - - - - - - - - - - - - - -gtgctgg