Sequence
atgc intronic sequence ATGC exonic sequence...agttgtcccaaaacagacccacttggttgcagttcaactttctggattgctttcccatggtttctattcctcatgtcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G37480.1 (Glycine max), 3'ss of exon 7
------------------agttgtcccaaaacagacccacttggttgcagttcaactttctgga--ttgctttcccat----ggtttctattcctcatgtcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
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gtcttgatttctcttgagttttgctctattatcaaatcacatgatccaattttaaagacaaggaacttgttttgcaagtaagagtttgttgactttat-tcattgtgttt--tctatgtttcagGTCACTCCATTTGATGGTCTTCTGGATTCTCTTTGAGAATGTCATGTCTCTGCATCGAACAAAGGCAACGATTATTGGTTTACTTGAGGCAAGTCGAGTG
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G34800.1 (Glycine max), 3'ss of exon 7
--agttgtcccaaaacagacccacttggttgcagttcaactttctggattgctttcccatggtttctattcctcatgtcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
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gtcttgatttcaaatcacatgaaccaattttaaaaacaagttccctgtttagcaagtaaaactttgttgactttat-tcgttgtttcctatgt----ttcagGTCACTCCATTTGATGGTCTTCTGGATTCTCTTTGAGAATGTCATGTCTCTGCATCGAACAAAGGCAACAATTATTGGTCTACTTGAGGCCAGTCGAGTG
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G07560.1 (Glycine max), 3'ss of exon 8
agttgtcccaaaacagacccacttggttgcagttcaactttctggat-tgctttcccatggtttctattcctcatg-tcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
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--tctcaactggtctaagaaaattaaaaacttttaaagacaatgaacatgttttactacaattgtagccttgtagactcaaggtgtttaactattttttcagGTCACTCCACTTGCTGGTCTTCTGGATTCTCTTTGAGAATACCATGTCTCTGCATCGAACAAAGGCAACAATTATTGGTCTGCTAGAGGGTAGTCGAGCG
upper sequence: Vv08s0007g03990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S36_214V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------agttgtcccaaaacagacccacttggttgcagttcaactttctggattgctttcccatggtttctattcc----tcatgtcgcttta-attaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
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gtaagttactattcctgatgtcaccgatcgattg-cgcgtacctgatctcatatgctgtattttaaattctacaaagatttcgaggatgctaacatgccgtacttgcatcacaccatgttccactgtgtcacagGTCACTGCACTTATTGGTTTTCTGGATTCTGTTCGAGAATGTGATGTCGCTGCACCGGACGAAGGCGACGATAATTGGTTTGTTTGACATCGGTAACGTGMapped 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|34543461|gb|CF511693.1|CF511693EST: GTTTATATCCCTACCATCATTACCATCCTCAATGCAGTTGGAACTCCAAG GTCACTCCACTTAATGGGTTTCTGGATCCTTTTTGAGAATGTCATGTCCCT
genomic: GTTTATATCCCTACCATCATTACCATCCTCAATGCAGTTGGAACTCCAAGgtttggtttc ... tatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgctttcccatggtttctattcctcatgtcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
aattaat putative branch site (score: 3)
tatctttc CT-rich tract
tttaattaatgtatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttgtcccaaaacagacccacttggttgcagttcaactttctggattgctttcccatggtttctattcctcatgtcgctttaattaatgtatctttcagGTCACTCCACTTAATGGTTTTCTGGATCCTTTTTGAGAATGTCATGTCCCTACATCGGACCAAGGCTACCTTCATTGGACTGCTGGAAGGCGGTAGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - -ccaaaac
- - - - - - - - -cccactt
- - - - - - - - - - - - - -tgcagtt
- - - - - - - - - - - - - - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - -ctttccc