Sequence
atgc intronic sequence ATGC exonic sequencegtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g36960.2 (Oryza sativa), 3'ss of exon 3
----gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattg--atgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
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gtttgtacctttaccttaacagagtttcgccgcatgaaattttcagattac----catgttttattgtcattctctcaataaaatattaattttccctttt--cttatttttttaac--taattttcagATTCGAGGAATTCGTTCTAAAATAGGCAACAATGAGTGTTTGCTGTGCTGTGTTGACTTTTTGTTTCATATCGTGGAAACTCTTGTTCGCTTCTTCAACA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G896337_T01 (Zea mays), 3'ss of exon 3
gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
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----aattgcaaa--cttataattgcacatgtggaaaagcctctgtcatttagcttcctttttatagttct--catcgcctttatc------------ttttttgcctcacac---cttacagATTCGTGGAATTCGTTCTAAAATTGGCAGCAATGAGTGTTTGCTATGTTGTATTGATTTTTTGTTTCATATTGTGGAGACCCTTGTTCGCTTCTTCAACA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G42290.1 (Glycine max), 3'ss of exon 4
gtacacatgccagtgcttgtttttctattaatcg-gcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttattt--atcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
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-----------------------gtaaccaatcatgatgacctatttgatttt-catttccttaatttatggaggct---tttgctttcattttttcttctattaaaattttgatttgtctttcagATACGGGGATTTCGGTCAAAGATTGGCAATAATGAGTGTTTACTTTGCTTGGTTGATTTCCTTTTTCATCTTGTGGAGACTCTTGTTCGTTTTTTTAACA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G24760.1 (Glycine max), 3'ss of exon 4
gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
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------------gtaaccaatcatta--tggccaatttgaagttcatttccttcattt-atggaggcttttattttc-attttttcttctattaaaattt--tgat------ttgtctttcagATACGTGGATTTCGGTCAAAGATTGGCAATAATGAGTGTTTACTTTGCTTGGTTGATTTCCTTTTCCATCTTGTGGAGACTCTTGTTCGTTTTTTTAACA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G21270.3 (Glycine max), 3'ss of exon 2
gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
|| || | || ||||||| || || | ||| | || || || | | | | || ||| | || | | |||| | | ||||||||| || ||| |||| || | ||| ||||| ||||| ||||||||||| |||||||||||| | ||||||||||||||||| |||||||| || || ||||
------attcctgcaga-gtgtttctataaa---attcagtcattattatccaatttctatcactatcctt----ttaacccttttaattcgtca---taattt------tgatgcctttcagATAAGAGGAATCCGATCCAGGATAGGCAATAATGAATGTTTGCTTTGCTGTGTTGATTTCGTTTTCCATCTTGTGGAGACTCTTGTCCGTTTCTTTAACA
upper sequence: Vv01s0011g03220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G21270.1 (Glycine max), 3'ss of exon 11
gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA------------------------------------------------------
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--------------------------------------------------------------------------------------------------------------------------------------------caggataggcaataatgaatgtttgctttgctgtgttgatttcgttttccatcttgtggagactcttgtccgtttctttaacaagtatgcttatgttcagGTTGACTTCTGTGTCCATATCTGCAATCACTCCCCATMapped 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|110362607|gb|EC926152.1|EC926152EST: TCTGCTATGGATCATTGTTTACAGCTGCAATAAGGGCATTGCGATGGGAG ATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGT
genomic: TCTGCTATGGATCATTGTTTACAGCTGCAATAAGGGCATTGCGATGGGAGgtacacatgc ... tatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
acttgat putative branch site (score: 5)
ttatctttc putative PPT
taaggtttatttatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacacatgccagtgcttgtttttctattaatcggcccactgattttatctcacatttgattgatgtttgtaatatggacttgattatatggtaaggtttatttatcaaatattatctttcagATTAGGGGATTCCGGTCTAAGATTGGCAACAATGAGTGTTTGCTTTGTTGTGTTGATTTCCTGTTCCATCTTGTGGAGACCCTTGTCCGGTTTTTCAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA