Sequence
atgc intronic sequence ATGC exonic sequencegttaatttaacctgaacatttgttttatctttcagctacttcctcattcagttatgaatgcaactttaaattttgagttggttaaccattatgcttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G25200.1 (Glycine max), 3'ss of exon 11
gttaatttaacctgaacatttgttt--tatctttcagcta-cttcctcattcagttatgaatgcaactttaaattttgagttggttaaccattatg-cttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
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gttg-ctcgacttatttctttgtctgatatgtttaagctatcttctttattccaaccacgttgaactgatgaatgt---gtttgtcaaatccaatgactgatgagcagGTGCTGTACCAAGTTTCTGGTTTTATAGACACTGATAAGATACATCCTAATGCATGCCCCGCCTTAGTAGCCGATCTGTCTTCTGGGGAGCAGGGAATAA
upper sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G30160.1 (Glycine max), 3'ss of exon 7
gttaatttaacctgaacatttgttt--tatctttcagcta-cttcctcattcagttatgaatgcaactttaaattttgagttggttaaccattatg-cttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
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gttg-ctcaacctgtttctttgtctgatatgtttaagctatcttctttattccaaccacattgaactgatgaatgt---gtttatcaaatccaatgactgatgagcagGTGCTGTACCAACTTTCTGGTTTTATAGACACTGATAAGATACATCCTAATGCATGCCCTGCCTTAGTAGCTGATCTGTCTGCTGGGGAGCAGGGAATAA
upper sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G37850.1 (Glycine max), 3'ss of exon 10
----------------------------------------gttaatttaacctgaacatttgttttatctttcagctacttcc--tcattcagttatgaatgcaactttaaattttgagttggttaaccattatgctt-ataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
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gttttttaaaattgttgcttgatctgatgtactttagcttctttttttgagagagagaagtgatgtacttt--agctatttgtgtttttctagttgt-actgtaactaagcaatttgtttgcttcaaatatgatgatcgatgggcagATGCTGTGCCAACTTTCTGGTTTTATAGACACTGATAAGATACACTCTGATGCATGCCCTGAACTTGTAGCTGATGTATCTGCTGGGGAGCATGGAATAA
upper sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G29970.1 (Glycine max), 3'ss of exon 7
gttaatttaacctgaacatttgttttatctttcagctacttcctcattcagttatgaatgca-actttaaattttgagttggttaaccattatgcttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAG---ACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
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--------------------------gttttatagacactga-taagatacacactgatgcatgccctgcacttgtagctgatgtatc----tgctggggagcacgga--ataatagttcttgcatttggtaagtcatattctctttttaagTCTTTGAGAATG-CATACCTGCATTGTTG-TGAACTT-------------------
upper sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G52410.1 (Arabidopsis thaliana), 3'ss of exon 8
gttaatttaacctgaacatttgttttatctttcagctacttcctcattcagttatgaatgcaactttaaattttgagttggttaaccattatgcttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
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----------gttctttgtctattcctttctttttcgtttgccacatctagtcattgtagcgtcgt-aaaccttacacaactcacttttcttattt-----cagAAATTATACCAACTTTCTGGTTTTCTTGACATTGATAAAATAAACCCAGAAGCATGGCCTGCCCTTATAGCTGACCTATCTGCTGGAGAACACGGAATAAMapped 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|30305216|gb|CB982010.1|CB982010EST: GCTGGAAGATGGCCCTAGAGAAAAGACAGCTCCCAGAAACTGACAAAAAG GTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGAT
genomic: GCTGGAAGATGGCCCTAGAGAAAAGACAGCTCCCAGAAACTGACAAAAAGgttaatttaa ... ttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGAT
EST:
gi|30305280|gb|CB982074.1|CB982074EST: GCTGGAAGATGGCCCTAGAGAAAAGACAGCTCCCAGAAACTGACAAAAAG GTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGAT
genomic: GCTGGAAGATGGCCCTAGAGAAAAGACAGCTCCCAGAAACTGACAAAAAGgttaatttaa ... ttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttatgaatgcaactttaaattttgagttggttaaccattatgcttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
ggttaac putative branch site (score: 3)
aactttaaattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaatttaacctgaacatttgttttatctttcagctacttcctcattcagttatgaatgcaactttaaattttgagttggttaaccattatgcttataagcagGTCCTGTACCAAGTTTCTGGTTTTATAGACATCGATAGCATAAACCCTGATGCATGGCCTGCCCTTGTGGCTGATGCATCTGCAGGAGAACAGGGAATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA