Sequence
atgc intronic sequence ATGC exonic sequenceCGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgatgtcaacttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 5'ss of exon 3
CGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgat-gtcaacttcag
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CGAACAATTCCACTCGATGGAGATGAAGATGCAACTGAGGAGGTCTTGGATCCTGATTTTGGGGAGGCAGCAATAGGCCGTGTGGCACCTGTTGATTCAGgtagagctac-taatggagatagct---agcacatcctctttt-------ttgctactctgcttctactaactcttaactggatatgtgattgatggtttcag
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G040843_T02 (Zea mays), 5'ss of exon 3
CGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgatgtcaacttcag
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CGGACAATTCCACTTGATGGTGATGAGGATGCAACTGAGGAGGTCTTGGATCCTGATTTTGGGGAAGCCGCAATAGGCCGTGTGGCACCTGTTGATTCAGgtaat--------gttgataatgggtttggttgtttttgttttggctactctgcattccctgcttta----attttggtacctgataaaaactgggcttcag
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA05G31920.1 (Glycine max), 5'ss of exon 2
CGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgatgt-caacttcag
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AGGACAGTTCCTTTGGATGGTGATGATTCTGCAACAGAAGAGGTTTTGGATCCTGACTTTGGAGAGGCAGCCATTGGGCGTGTTGCTCCAGTTGATTCAGgtaaaataaataatcaaatcaa----tagaaatattttcttaca-tagctgaagaaacttaccataactctccttggattgctgaacatatatatgatctcag
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA08G15220.1 (Glycine max), 5'ss of exon 3
CGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagtt------catgttatgatgtcaacttcag
| |||||||| |||| |||||||| |||||||||||||| || ||||||||||| |||||||| ||||| ||||| |||||||| || ||||| || |||||| || | || | || || || | | || || | ||| |||| | | | | | ||| ||| || | ||||
AGGACAGTTCCTTTGGACGGTGATGATTCTGCAACAGAAGAAGTTTTGGATCCTGACTTTGGAGAGGCAGCCATTGGTCGTGTTGCTCCAGTTGATTCAGgtaaaataaataatcaaatcaa----tagaaatattttcttaca-tagcagaagaaacttaccataatactccttgggttgctgaacatattgcacctgtgatctcag
upper sequence: Vv13s0074g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S15_44V6.1 (Physcomitrella patens), 5'ss of exon 3
CGCACAGTTCCCCTGGATGGTGATGACTCTGCA---ACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaat--acagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaa---------tctaagttcatgtt--atgatgtcaacttcag-------------------------------
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---ACTGTGTATCTCGATGGCGACGAAACCAAAGGGACCGAGGAGATTTTGGATCCTGACTTTGGAGAAGCAGCCATTGGTCGCGTGGCGCCTGTTGATTCTGgtaggtgcttggatgtttttgactgcattgtcgaaattatacttaagtcgtctaagacgacgaagacgtgtaaaagattataattaaaatcttcgttcagtagtttcaatctcaggtgctaatactgatgagtgtgccttgggcagMapped 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|110732966|gb|EE108716.1|EE108716EST: TCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTG GATTGTGGTGGATTATACTGTTACGTGCTTATGGAAAATGCTCTGGAGATC
genomic: TCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaat ... tcaacttcagGATTGTGGTGGATTATACTGTTACGTGCTTATGGAAAATGCTCTGGAGATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCACAGTTCCCCTGGATGGTGATGACTCTGCAACAGAAGAGGTATTGGATCCTGATTTTGGAGAAGCAGCAATTGGCCGTGTTGCACCTGTTGACTCTGgtaaatcaatacagcagagcatgttttaagaagaactaatttcacttgcattagaatttaaactctagcaaatctaagttcatgttatgatgtcaacttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC