Sequence
atgc intronic sequence ATGC exonic sequence...tttttgttaaaaatggtggcagaagataagtatgccctcacatttgagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 7
----------------tttttgttaaaaatggtggcagaagata-agtatgccctc---acatttgagttttgtttct------------tggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
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gtgattttctctctcattatttaacaaactaattacaattgatgtagtttccctttgatgaacgttgattctactgccaatccatgagaatgcattcatgttctaattttaatttat-ttaactgcatgcagGCTGCTAACTGGCTCGATTCTGGCTCATGAGATGATGCATGCTTACCTCCGACTTAAAG
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G36620.1 (Glycine max), 3'ss of exon 9
--tttttgttaaaaatggtggcagaagataagtatgccctcaca-tttgagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
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gaatcctccctccccccatcccccaccccgttcctttcacaacaactttgttttcatatgttgatttcatttacccatgaatgt---ttttttcttttctcagGTTGCTTACTGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTGCGGCTTAAAG
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ07250 (Selaginella moellendorffii), 3'ss of exon 6
tttttgttaaaaatggtggcagaagataagtatgccctcacatttgagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG-----------------
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-----------------------------gtgaggggaaacatttcagt----tctcgccacgaaagactctgat--------------catgtttgcagTCTGCTCACTGGCTCCATCCTGGCTCACGAGCTCATGCATGCCTGGCTCCGGCTCAACGGTGAGCTCCCTGAACTT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ07867 (Selaginella moellendorffii), 3'ss of exon 6
tttttgttaaaaatggtggcagaagataagtatgccctcacatttgagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG-----------------
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-------------------------------------------gtgagttcagttc--------agttctcgccacgaaacactctgatcatgtttgcagTCTGCTCACTGGCTCCATCCTGGCTCACGAGCTCATGCATGCCTGGCTCCGGCTAAATGGTGAGCTCCCTGAACTTMapped 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|33407704|gb|CF213331.1|CF213331EST: CACGTCGTTGCGATGTGACCG-ATCNTCTCATTTTGTATGGCCTTCCTAG GTTGCTAACTGGGTCGATTCTTGCTCACGAGATGATGCATGCCTGGCTCCG
genomic: CACGTCGTTGCGATGTGACTGCA-GTTCTCATTTTGTATGGCCTTCCTAGgtactcttct ... ttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
ttctaat putative branch site (score: 2)
cactcttt putative PPT
ataaattttctaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgttaaaaatggtggcagaagataagtatgccctcacatttgagttttgtttcttggataaattttctaatgtaagtaaacactctttgtatacagGTTGCTAACTGGGTCGATCCTTGCTCACGAGATGATGCATGCCTGGCTCCGACTAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - -taaaaat
- - - - - - - - - - - aagataa
- - - - - - - - - - - - - - - - - ccctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagtaaa