Sequence
atgc intronic sequence ATGC exonic sequence...tgtcattattgtgtgacttgctgttgattatttttgaagtgatgttttgttgagattaattttattattgattttccattattttgaatgaataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g14510.2 (Oryza sativa), 3'ss of exon 5
tgtcattattgtgtgacttgctgttgattatttttgaagtgatgttttgttgaga-ttaattttattattgattttccattattttgaatgaataa----------aacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
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-----gtat-gctttactcatt-tcagttctttgtcaggaagtaatttgcagaggcttcatgttattgt-gctcccctagctttttaactaaacaagtatctccttaacagGCAATCATTGATGCTGCATCCTATGTACCTCCACCCCCTTCAGAAGAGCAAAAGAAGAAGGTTGAAAAAAT
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G170532_T01 (Zea mays), 3'ss of exon 5
tgtcattattgtgtgacttgctgttgattatttttgaagtgatgttttgttgagattaattttattattgattttccattattttgaatgaataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
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-------------------------gtatgcttcttcaattcagtttcattttctagggctagaccacttacattactccacaatt--tgccctgaacagGCAATCATTGATGCTGCATCATATGTTCCTCCACCCCCAACAGAAGACCAAAAGAAAAAGATTGAAAAAAT
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G62850.3 (Arabidopsis thaliana), 3'ss of exon 5
tgtcattattgtgtgacttgctgttgattatttttgaagtgatgttttgttgagattaattttattattgattttccattattttgaatgaataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
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-------gtaatat-attgaatatcacgtcttttcgtcatggtgtgtt--tcattctatctaaaacggagatgtttttgtttaatcacataactgaacagGCGATAATTGATGCGGCTTCATATGTTCCACCTCCACCATCAGAAGAACAAAAGAAGAAAATAGTAAAGCTMapped 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|351029521|gb|FQ436915.1|FQ436915EST: GGGTAACTTTGAAGATGCACTGGGAAAACTACAG GCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAG
genomic: GGGTAACATTGAAGATGCACTGGGAAAACTACAGgtaccataca ... aataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAG
EST:
gi|349832487|gb|FQ421048.1|FQ421048EST: GGGTAACATTGAAGATGCACTGGGAAAACTACAG GCAATTATTGATGCTGCTTCATATGTCCTACCGCCCCCATCAGAAGAGCAG
genomic: GGGTAACATTGAAGATGCACTGGGAAAACTACAGgtaccataca ... aataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttgagattaattttattattgattttccattattttgaatgaataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
tattgat putative branch site (score: 3)
attaattttattattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcattattgtgtgacttgctgttgattatttttgaagtgatgttttgttgagattaattttattattgattttccattattttgaatgaataaaacagGCAATTATTGATGCTGCTTCATATGTCCCACCGCCCCCATCAGAAGAGCAGAAGAAAAAAATTGCCAAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -tgacttg
- - - - - - - - - - ctgttga