Sequence
atgc intronic sequence ATGC exonic sequence...acataatcctccatagatagttcggattatggattagttaatttaaattaagggaattgccggtagacagctgacattccacctttaactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os04g54640.1 (Oryza sativa), 3'ss of exon 7
---------------------------------------------------------------------------------------acataatcctccatagatagttcggattatggattagttaatttaaattaagggaattgccggtagacagctgacattccacctttaactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
| || | || | ||| | | |||| | | | ||| | | | | | | | | || || | || | | || | |||||| || || || ||||||| || || || || ||||| || ||||||||||||| || |||||||| || ||||||||||| ||||||
gtaactctgtcaaactcgctatgcttgtagtctgtattgtatttattttttcttagaatcatgtttattttgtatcagcttcatagtttctgattcaacacaaata-tacaaattacatgt--gctcattacactgacgaaacatccaaaaacaccactaaaata--aataacggatattgtatcagGTTAGCTGTAGTGTCAATGGCAGGGCTCGCTGCTGAAGGTCTAGAATATGACAAAGTTGTCGGTCAATCGGCAGATCTTTTCACCCTTCAG
upper sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G004352_T01 (Zea mays), 3'ss of exon 7
-----------------------------------------------------------------------acataatcctc-catagatagttcggattatggattagttaatttaaattaagggaattgccggtagacagctgaca-------ttccacctttaactgttattc-cagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
| | | || | | | | | | | || | | | | | | || | | | | ||| | | | ||||| || | || ||| |||||| || || || ||||||| ||||| || || ||||| || ||||||||||||| || |||||||| || ||||||||||| ||||||
gtaaccctcttttttccatgcatgtaatctacagtttttaacctgtccatgcctgtaatatacagtgggtagcttggtgttcatagtgtaaagttgaactttgcact-gcacacctgcaaaaaagtcactaggatcaaacaagtatgaaagctactgacacctacaatttttgttctcagGTTAGCTGTAGTTTCAATGGCAGGACTGGCTGCTGAAGGTCTAGAATATGACAAAGTTGTAGGTCAATCAGCAGATCTTTTCACCCTTCAG
upper sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G31720.1 (Glycine max), 3'ss of exon 7
----------------------------------------------------------------acataatcctccatagat--agttcggattatg----gattagttaatttaaattaagggaattgccggtagacagctgacattccacctt-taactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
|||| | || | ||| | | | | | | |||| || || | || ||| | | | | | | | || ||| ||||| ||||| ||||||||||||| ||||||||||| | ||||||||| ||||||||||||||||| |||||||||| ||| |||
gtgtttatttaccatacacctctaatttctcttattcactgtggaagaaaaaagccatgccaacttataacttttcaagaaccaagtactaaccaagccaagccttaataatcacaaaacttggcttaataggaagagttttaattagtaatttcatttttttcatatcagATTGGCTGTTGTGTCAATGGCTGGACTGGCAGCAGAAGGTTTAACATATGACAAGGTGGTTGGTCAATCTGCTGATCTTTTCAGTCTCCAG
upper sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G14970.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------------acataatcctccatagat--agttcggattatggattagttaatttaaattaagggaattgccggtag---------acagctgacattccacctttaactgttattc----cagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
|||| | || | ||| | | | | | | | ||| | | ||||| || | || || ||| ||||| |||| ||| ||||| ||||| ||||||||||||| ||||||||||| | ||||||||| ||||||||||||||||| |||||||||| ||| |||
gtactatttatttaccatacacctcttattgctcttatccaatgtgagagaaaaaaagccatgacaacttataacttttcaagaaccaagtaccaacca--aaccaagccttattaatcacaaaacttgcctttaagaaatacgaagagttgtaattagtaatttaaaaaaaattcatatcagATTGGCTGTTGTGTCAATGGCTGGACTGGCAGCAGAAGGTTTAACATATGACAAGGTGGTTGGTCAATCTGCTGATCTTTTCAGTCTCCAG
upper sequence: Vv07s0031g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G21960.1 (Arabidopsis thaliana), 3'ss of exon 7
acataatcctccatagatagttcggattatggattagttaatttaaattaagggaattgccggtagacagctgacattccacctttaactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
| | || | || || | | | || || | | | || | |||| | ||| ||| || ||||||||| | ||| ||||||||||||||||| || || || ||| | ||||||||||| |||| |||||||| ||||| ||| ||||||||
--------------------gtagagtttagttaaagagaaagaagaatcagagatctcaagattctcaacc--cattgaatcttctttggtt-tttcagGTTGGCTGCTGTTGCAATGGCTGGACTTGCCGCCGAGGGTCTGAAGTATGACAAAGTAATTGGCCAATCTGCAGATCTCTTCTCTCTTCAGMapped 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|32270105|gb|CD719264.1|CD719264EST: CTGGAAAAACTGATATACAGTGGGCAGCTCGACACCAAGGAACTAGACAG GTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGA
genomic: CTGGAAAAACTGATATACAGTGGGCAGCTCGACACCAAGGAACTAGACAGgtacatacct ... gttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaagggaattgccggtagacagctgacattccacctttaactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
ctttaac putative branch site (score: 3)
ttattcc putative PPT
tttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acataatcctccatagatagttcggattatggattagttaatttaaattaagggaattgccggtagacagctgacattccacctttaactgttattccagGTTGGCGGTTGTAGCAATGGCTGGACTTGCAGCAGAAGGCCTGCAATATGACAAAGTGGTTGGTCAATCTGCCGATCTTTTCACTCTTCAG
- - - tcctcca
- - - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - aattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagctga