Sequence
atgc intronic sequence ATGC exonic sequence...atatttagtttcttttgctagtttgaatttttagtttttcctccattttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g49070.1 (Oryza sativa), 3'ss of exon 4
----------------------------------------------------------------------------------atatttagtttcttttgctagtttgaatttttagtttttcctccat--------------tttgtaaatta---taccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
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gttatttggaccacaggaacttttctttgtcagttttagttcttacaaaataagaaaaaaaatcctcctgttgtgcaactgtatcttcaaacttttctcccattatttcttcttagaattacttacacaatcagtattcatgtttgcagctttcactactgatttcattcttccacctgttctttttt---tttgtcagGTTTTGTCAGTAACTCTGGATGATTGGTCTGATAGTGATATAGATTCCATGCTTGAGATTGGTGGAAACTCATATGCAAATTCCATTTATGAGTCTTTTC
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G161728_T04 (Zea mays), 3'ss of exon 4
-----------------------------------------------------------------atatttagtttcttttgctagtttga-atttttagtttttcctccattttgtaaattataccaatataatt--cttaaaacaatattattttggactgt-tcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
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gttatttgaacatgacaaacttcttttacatttcttttaattgtattgtacatatatgtcaatgcaccttcaaactcatcagcattttcagtactcttatgatctttagtctgtcatagttcatgcttagactccttactcatttcatggttccgctattctccatcagGTTTTATCTGTAACTTTGGATGATTGGTCTGATAGTGATATCGACTCCATGGTTGAGGTTGGTGGAAACTCATATGCAAATTCAATTTATGAGGCTTTTC
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G126946_T03 (Zea mays), 3'ss of exon 3
atatttagtttcttttgctagtttgaatttttagtttttcctccattttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA-----------------------------------
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-----------------------------tgtagtctgtcatagttcatgcttacactccttactcatttcatgcttc--caccgttctcca----tcaggttttatctgtaactttggatgattggtctgacagTGATATCGACTCCATGGTTGAGGTTGGTGGAAACTCATATGCAAATTCAATTTATGAGGCTTTTCTTCCAAAAGATCACCCAAAACCCAAACCAGATTCA
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G126946_T06 (Zea mays), 3'ss of exon 4
------------------------------------------------------atat-ttagtttctttt---gctagtttgaatttttagtttttcctccattttgtaaattataccaatata-------attcttaaaacaatattattttggactgttc------agGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
|||| | | | | || ||| | | ||||| ||| | | | |||| | | | | | | || | | || | || || |||| |||| || ||||| | ||||||||||||||||| ||| || || |||||||||||||||| ||||| || | ||| |||||||||||||||||||||
gttatttggacatgaaaaacttccttttacaattcttttcattgcagtgtacatatatgtcaatgcatcttcaaactaatcagcattttcagtagc-cgtatgatatgtagtctgtcatagttcatgcttacactccttactcatttcatgcttccaccgttctccatcagGTTTTATCTGTAACTTTGGATGATTGGTCTGACAGTGATATCGACTCCATGGTTGAGGTTGGTGGAAACTCATATGCAAATTCAATTTATGAGGCTTTTC
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G29940.1 (Glycine max), 3'ss of exon 2
--atatttagtttcttttgctagtttgaatttttagtttttcctccattttgtaaattat-accaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
|| || | | | || | | | || || | || | || | || || ||| ||| |||| | || ||| ||||||| ||||||||| |||||||||| ||||| ||||||||| ||||| ||| |||| |||||||||||||||||||||||||||||||||||||||| |
atgagttgtgtctatcaagttaatagtgtgctgaacttatttatttatgcttggtcttgtcgtgcattaaagccttgggacattattttctt--act-ttcagGTTTTGTCTGTGACATTGGATGAATGGTCAAGTGATGAAATAGATGCAATGATTGAAGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTATT
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 2
--atatttagtttcttttgctagtttgaatttttagtttttcctccattttgtaaattat-accaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
|| |||| || | || | | | || | | || | || | || || ||| ||| |||| | || ||| | ||||| || |||||| |||||||||| ||||| ||||||||| ||||| ||| |||| |||||||||||||||||||||||||||||||||||||||| |
atgagttgtgtttattaagttaatagtgtgctgaacttatctatttatgcttggtcttgtcgtgcattaaaaccttgggacattattttctt--act-tacagGTTTTATCTGTGACATTGGATGAATGGTCAAGTGATGAAATAGATGCAATGATTGAAGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTATT
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G02830.1 (Glycine max), 3'ss of exon 4
atatttagtttcttttgctagtttgaatttttagtttttcc---tccattttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
|||| | | ||| | || | | ||| | | | | | || || | | ||||| | ||| | | |||| ||| |||||||||||||||| |||||||||||||||| || |||||||| ||||| ||| | || ||||| |||||| ||||||||||||||||||||| |||| ||
--atttggcctagtttttttcttcaattggttatgtctatcaagttaagagtggtgcgaatgctgaactaatttgtttgacagcactgttttttact-ctcagGTGTTGTCTGTGACATTGGATGATTGGTCAGAGGATGAAATAGATGCAATGATCGAAGTTGGGGGAAATGTTTCTGCTAATTCAATTTATGAAGCTTATA
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G13700.1 (Glycine max), 3'ss of exon 4
---atatttagtttcttttgctagtttga-atttttagtttttcctccattttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
| |||||||| ||| || | || |||| | | ||| ||| | | | ||| | | | ||| |||| ||| |||||| ||||||||| |||||||||||||||| || |||||||| ||||| ||| | || ||||| |||||| |||||||||||||||||||||| |||| ||
aaagtttttagtttttttcttcagacagttatatttatcaagttaagagtggtgtgaat---gctgaactcatttgtttgatagcattgttttttact-ctcagGTTTTGTCTGTGACATTGGATGATTGGTCAGAGGATGAAATAGATGCAATGATGGAAGTTGGGGGAAATGCTTCTGCTAATTCAATTTATGAAGCTTATA
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G05330.1 (Arabidopsis thaliana), 3'ss of exon 4
-----atatttagtttcttttgcta-gtttgaatttttagtttttcctccattttgtaaattatac----caatataa-------ttcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
|||| | ||| | | || | | || | ||| | || |||| | |||| | ||| || | ||| | | | | ||||| | | ||||| ||||||||| || | ||||| ||||| ||||| ||| | ||| ||||| |||| ||||||||||| | |||||||||||||||||||| ||||||
gtgatatatcttctttgctctattacatattggttgtccatttgttgtctcttttcttcattactcaagacaaaattagatctctttcgttgtgtactcattgtttggtttctccagGTTTTGTCTGTGACACTAGATGAATGGTCAGATGAGGAAGTCGATTCCATGATTGAAATTGGAGGAAATGCGTCTGCTAATTCAATTTATGAAGCTTTTT
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G21160.4 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------atatttagtttctttt-gctagtttg-----aatttttagtttttcctccattttgtaaattataccaatataat-tcttaaaacaatatt----attttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
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gttgtgactctttgcttctctttctagttttggtttatctttggtgaaaatttgccattggattccattaagatggcttacaaataatattgtggatttgttatctcgctccacttcttcttacagaatcttttgcaagtgtatttatagttttcaactttccagGTCTTATCCGTGACATTGGATGAATGGTCAGATGAAGAAGTCGATTCGATGATTGAAATTGGAGGAAATGCCTCTGCAAATTCAATTTACGAGGCGTTTAMapped 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|161719936|gb|FC066718.1|FC066718EST: GCTTAAAATGTTGTGGTGTGCACAGAAGCCTTGGTACACATATCTCAAAG GTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCGATG
genomic: GCTTAAAATGTTGTGGTGTGCACAGAAGCCTTGGTACACATATCTCAAAGgtagctgccc ... gactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
taaattataccaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatttagtttcttttgctagtttgaatttttagtttttcctccattttgtaaattataccaatataattcttaaaacaatattattttggactgttcagGTGTTGTCTGTGGCATTGGATGATTGGTCTGATGATGAAATTGATGCCATGGTTGAGGTTGGAGGAAATTCTTCTGCTAATTCAATTTATGAGGCTTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - -cttttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ataccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaacaa