Sequence
atgc intronic sequence ATGC exonic sequencegtaagcttttaattgccttttgttctctctatttttatttcttagctttcctgaaatcttgtttcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 5
gtaagcttt-taattgccttttgttctctctatttttatttcttagctttcctgaaatcttgtttc-----ttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
||||| | || || | | | || | ||| || || ||| |||| | ||||| | || |||||||| || |||||||||||||| || ||||||||||||||||| ||||||| |||||||||| | || || ||||| || |||||||
gtaagtggaatgcatgactctcagaattttgcttctgattcatttaaatttctgttatctcaagggtgaaataacagGTCTTGTGCGATAGGCACTTCGGGGGAATTAACTATCCAGTTGGTGGTGTTGGTGGTATTGCTATGTCCTTGGCAGATGGGCTTGTTGACAAAGGCAGTG
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G108457_T01 (Zea mays), 3'ss of exon 5
gtaagcttttaattgccttttgttctctctatttttatttc-ttagctttcctgaaatcttgtt-----tcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG--------------
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gtaagttcaagcttgatcttctggatctccattccaaattcatttggacttctgttatctcagtatcaatataacaggtcttgtgcgatagGCACTTTGGGGGAATTAATTATCCAGTTGGTGGCGTTGGTGGTATCGCATTATCCCTGGCAGATGGCCTTGTTGAAAAGGGCAGCGAAATCCGTTACAAG
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 5
gtaagcttttaattgccttttgttctctctatttttatttc-ttagctttcctgaaatcttgtt-----tcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
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gtaagttcaagcttgatcttctggatctccattccaaattcatttggacttctgttatctcagtatcaatataacagGTCTTGTGCGATAGGCACTTTGGGGGAATTAATTATCCAGTTGGTGGCGTTGGTGGTATCGCATTATCCCTGGCAGATGGCCTTGTTGAAAAGGGCAGCG
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 5
-------------------------gtaagcttttaa---ttgccttttgttctctctatttttatttcttagctttcctgaaatcttgtttct--tccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
|| || | | ||| | ||||| | | ||||| | || | || | || | ||||| | |||||||||||||| || || ||||| || |||||||||||| |||| ||||||||||| ||||| |||||||| ||||||||||| ||||| | || ||||
acactaatgtaatgtcaagtatagtgtccatttgcatagttcacctatgcctctcttgctctccatttcct-gcatagctagactcctttttctccttcagGTTCTATGTGACAGACACTTTGGTGGGATTAACTACCCTCTTGGGGGTGTTGGTGGGATTGCAAAGTCCTTAGCAAAAGGTCTCGTTGATCAGGGTAGTG
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 5
-----------------------gtaagcttttaa-----ttgccttttgttctctctatttttatttcttagctttcctgaaatcttgttt-cttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
|| || || | ||| | ||||| | | ||||| | | | ||| | ||| ||| | |||||||||||||||| || || ||||| || |||||||||||| |||| ||||||||||| || || |||||||| ||||||||||| ||||| | || || |
acactaatgtaatgtgaagtatagtgtcctgttgcatagttcacctctgcctctcttgctctccatttcctgcatggcttgacacctttttttcctccagGTTCTATGTGACAGACACTTTGGTGGGATTAACTACCCTCTTGGGGGTGTTGGTGGGATAGCAAAGTCCTTAGCAAAAGGTCTCGTTGATCAGGGTAGCG
upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcttttaattgccttttgttctctctatttttatt-tcttagctttcctgaaatcttgtttcttc-----cagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
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gtaggattcttgtttttgcatttggtgtctactcgtgttaccctttattttattttttcttatgtcttcaaggacagGTTTTATGTGACAGGCACTATGGAGGAATTAACTACCCGGTTGGTGGAGTTGGTGGGATTGCCAAGTCTTTGGCAGAAGGGCTTGTTGATCAAGGCAGTGMapped 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|161714576|gb|FC063560.1|FC063560EST: TAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG GTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTT
genomic: TAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATGgtaagctttt ... tttcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgttctctctatttttatttcttagctttcctgaaatcttgtttcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
tcttgtttcttcc CT-rich tract
tctatttttatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcttttaattgccttttgttctctctatttttatttcttagctttcctgaaatcttgtttcttccagGTTCTATGTGATAGGCATTTTGGGGGAATTAACTACCCTGTTGGTGGTGTTGGTGGAATTGCTAAGTCCTTGGCAAAAGGTCTAGTTGAAAATGGCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA