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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggattgcaaatgaaactgataaactggtttacatttgaacttcggttttacgttggaactttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT

Basic information

species Zea mays
transcript GRMZM2G014805_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 22
gtaagggattgcaaatgaaactgataaactggtttacatttgaacttcggttttacgttggaactttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
|| |||| |||||||| |   || |       |  | | || ||||    |||| |     | |||               | | ||   | ||||||| ||||||||||||| ||||||||||||||||||||||||||||||||||||||||   ||||||| ||||||||||||||||| ||||| |||||||||||||| ||||||
gtgagggcttgcaaatcactatgtttcttatttaaaaaattaaactattattttgcaaaaaagctt---------------acatatcaatatttcttgctttcacttagGTCGAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACGCCAACTTGGCTTGGATGATCCATCAAAAATTCGCCTTACATCTCACAACTGTTAT

upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 22
-----------gtaagggattg---caaat----gaaactgataaactggtttacattt-------gaactt-----cggttttacgttggaac-tttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
           ||||   ||||   |||||      |  | ||| | ||   ||  |||       | || |        || ||  ||   |   || | |||| |||  ||| | |||        | |       |||||||| |||  |||| ||||||||||| || |||| ||| || ||  ||||||| |||||||||||||| |  ||| |||||||  |||||||||| || 
gtaagcattgtgtaatttattggagcaaatcgttagatttaatatattgcagtatttttcttgagaggacatgtaagtatttatatattattatgcttagatttgcatcctcat-cttatactccgtatatgaatttctagGTCAAGGCTCTATACATATGATGATGTGGTGGAGAAAGTGGCTCAACAACTTGGTTTGGATGATCCATCCATAATTAGGCTTACCCCTCACAATTGCTAC

upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA20G11330.1 (Glycine max), 3'ss of exon 14
-------------------------gtaagggattgcaaatgaaactgataaactggtttac--atttgaactt-cggttttacgttggaactttggttttgaat-----caacatacatatgtgtttct-tgttttcactt--agGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
                         | ||    ||     ||| |||  | |  |  |||||  |  || |  |   ||| |   | |  | ||  | || | ||     |  ||  | ||| | || |  | | || | ||  ||||||| ||||  ||| ||||||||||| || |||||||| || ||  |||||||  ||||||||||||| || || ||||||||| | ||||| || || 
gtaagcatcttggaacttattgggggcaaattgttaagtttgatactatttagattttttactaacgtgcatatgtagttatttatagataattatgcttagcattttgtcctcagtcttatattttcccatatattaatttctagGTCAAGGCTTTTTACGTATGATGATGTGGTGGAGAGAGTAGCCCAACAACTTGGTCTGGATGATCCATCCAAAATACGGCTTACACCACACAACTGCTAC

upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: GLYMA13G16040.1 (Glycine max), 3'ss of exon 3
--------gtaagggattgcaaatg-aaactgataaactggtttacatttgaactt----cggttttacgttggaactttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
         |      || ||   | ||| || |||| | | |   |||| || ||    |   |||| | ||    ||  ||  | | ||   |||| |     | | ||   |||   |||||||| ||||  ||| ||||||||||| || |||||||| || ||  ||||||| ||||||||||| || || || ||||||||| | ||||| || || 
gtaagcatcttgaaacttacatgggcaaattgttaaatttgatactatttaaattttttactaatttatgctgagcattctgtccttagtct-tatactttcccatatgttaacttc---tagGTCAAGGCTTTTTACATATGATGATGTGGTGGAGAGAGTAGCCCAACAACTTGGTTTGGATGATCCGTCCAAAATACGGCTTACACCACACAACTGCTAC

upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 22
gtaagggattgcaaatgaaactgataaactggtttacatttgaacttcggtttt---acgttggaactttg--gttttgaatcaacatacatatgtgtttcttgttttcactt----agGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
                        |||     | | ||| | | |   |||| |   | | ||  | | ||  ||||| | |  |  |   ||    | | |  |||  | |     ||||||||||| || | ||||||||||||||| || ||||| || | || |||||| |||||||||||||| || ||  | |||||||||||||| || |||
-----------------------gtaagtacatatccatctaatcagtggttctgacatgatgagaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT

upper sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 22
gtaagggattgcaaatgaaactgataaactggtttacatttgaacttcggttttacgttggaactttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
                | || ||   || |   ||  |  | |   || |  ||| | |   | |||  ||   |        | ||   |||               ||||||||||||  |||||||||||| || || || ||||| || | | | ||||| |||||||||||||| || ||  |||| ||||||||||| ||||| 
----------------gtaagtgcagaaatcaattgtaactaa---tcagcattatgattatagtttatttactagctggtgcatatgaatgtcc-------------agGTCAAAGCTTTTTACTTATGATGACGTGGTAGAAAGAGTAGCTCGTCAGCTTGGTTTGGATGATCCATCCAAAATCAGGCTCACATCTCACAACTGTTAC

Mapped 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|32933255|gb|CF038067.1|CF038067
EST:     CACTTTCGGTCTCTGGACAGACCAAAGGATGATGATTTTTCTTTGGAATT                         GTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT
genomic: CACTTTCGGTCTCTGGACAAACCAAAGGATGATGATTTTTCTTTGGAATTgtaagggatt ... tttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT
EST: gi|32934023|gb|CF038835.1|CF038835
EST:     CACTTTCGGTCTCTGGACAAACCAAAGGATGATGATTTTTCTTTGGAATT                         GTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT
genomic: CACTTTCGGTCTCTGGACAAACCAAAGGATGATGATTTTTCTTTGGAATTgtaagggatt ... tttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT
EST: gi|60354119|gb|DN221092.1|DN221092
EST:     AAGGATGATGATTTTTCTTTGGAATT                         GTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT
genomic: AAGGATGATGATTTTTCTTTGGAATTgtaagggatt ... tttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttggaactttggttttgaatcaacatacatatgtgtttcttgttttcacttagGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT
                                     tttcttgttttcactt  CT-rich tract
              ttttgaat  TA-rich tract