Sequence
atgc intronic sequence ATGC exonic sequence...acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
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-------------------gtaagtggtcgagtgataattaagcatatacttagatcaatagtcaatt----ggt-taataaactgctctgc---tgcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
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-------------gtaaca--tgaccgccaaatgta-----tgcatctttgtgatt-attattaacatttcac-tgta-ttaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
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-------------gtaac-attg-ctgccaaatgttgctcatatg----cttaaattattattggtatttca--ctttattaacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
|||| |||| | | |||| || ||| || || | | |||| | ||| | | || |||| | | ||| ||||||||| || |||||||| |||| || | || || |||||||| ||||| ||| ||||||||||||||||||||||||| |||||||| || || |||||
-------------gtaac-gttg-ctgccaaatgttgctcat--atgctgtaatt--attattgatatttcac-tgta-ttaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
|||| |||||| ||||| |||||| | || | | ||| ||| | | || |||||| | ||||| || |||||| || |||||||| ||| || | ||||| |||||||| ||||| || ||||||||||||||||||||||||| |||| |||||||| |||||
-------------gtaaca--tgaccgccaaatgta-----tgcatctttgtgatt-attattaacatttcac-tgta-ttaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
upper sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G40760.1 (Glycine max), 3'ss of exon 6
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
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-------------gtaaca--tgaccaccaaatgtt-----tgcaactttgtaattgttattgacatttctctgtat---taacagtgttgtgcttgcagATGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTACTACCTTCGAAAACTGCTATTGCCCCTGTTAATCCAACMapped 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|110406292|gb|EC971861.1|EC971861EST: TGATCCTAATTCCGTTCTCCGATTTGCCTTCGTTGAATTTACTGATGAGG AAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATC
genomic: TGATCCTAATTCCGTTCTCCGATTTGCCTTCGTTGAATTTACTGATGAGGgtatgttctg ... gtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATC
EST:
gi|110385680|gb|EC950225.1|EC950225EST: TGATCCTAATTCCGTTCTCCGATTTGCCTTCGTTGAATTTACTGATGAGG AAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATC
genomic: TGATCCTAATTCCGTTCTCCGATTTGCCTTCGTTGAATTTACTGATGAGGgtatgttctg ... gtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
aattaac putative branch site (score: 2)
attgtttttttaggta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC
- - - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - gcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattcat