Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT

Basic information

species Zea mays
transcript GRMZM5G868168_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g46740.1 (Oryza sativa), 3'ss of exon 5
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtag-cttcttgtgcctgagcattctgatgtggtgtt--gtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
    ||| |||||    |   |   |||||  | || ||||  ||||||    || | | |    ||| |  ||  ||||| |  |||| ||     ||  |||| ||||||||||| ||  | |||||||||||||| ||||||||||||||||||||||||||
--gtatactcttta-attacttcaaatctgc-cgaataaataccatgataattttatcgaccaactgttctcgaaaattctaaaatggtctttgcctatgaagGTGTTTCAAAGTGCAGCTTTGTTTGATTCTCTCACGGTTCGTGAAAATGTTGGATTCCTTTT

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G38730.1 (Glycine max), 3'ss of exon 4
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
                 |  ||| ||   ||| || | |||    | |||    | | | ||     |    | | |  |  | |     ||| | | |||| || |||||||| ||||| ||||||||| | || ||||||||||||||||| || || ||
----------------gtaagtttcaga-gtattatgcaatatactaattcttattttgttttcaacgt---aacttattttttttaatctgtaa-atagGTTTTCCAAAGTGCAGCACTCTTTGATTCTTTGACTGTTCGTGAAAATGTTGGTTTTCTCTT

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G47600.1 (Glycine max), 3'ss of exon 4
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcat-tctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
               | |  ||| ||   ||| || | |||    | |||     ||  | | ||     | |   | | | || |     ||| | |||||| || |||||||||||||| ||||||||| | || ||||||||||||||||| || || | 
---------------ggtaagtttcaga-gtaatatgcaatatgctaattcttaggttacgttttaattgtaattttattttatttttatctgtaa-acaGGTTTTCCAAAGTGCTGCACTCTTTGATTCTTTGACTGTTCGTGAAAATGTTGGTTTTCTCT-

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT1G65410.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
          |  ||||| |  || |  |||| |      |  ||| | | | |||       ||||  || |      |  |||  |  |||   |||||| ||||| ||||| || || |||||||| ||  ||||||||||||||||||| || ||  |
---------gtaggtgctgttctggagatgtatt------tctcataagt-cgttgag----tttgtatctaaatggctttttgtttt-ctgtctcacagGTATTTCAGAGTGCAGCTCTCTTTGATTCACTATCAGTTCGTGAAAATGTTGGTTTTCTACT

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0023g00290.t01 (Vitis vinifera), 3'ss of exon 4
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
||| |     |||   ||||      ||| | ||     | |  || || |   |      || |||   |  |  ||||       | || ||| |||||||||||| ||||||||||||||||||||| | || ||||||||||||||||| ||||||||
gtaaaatacttttaaactttaggtattctttcctgtcctaagttatcatatttcta----atcatgtaattctgttttctt-----ctcttctgaaacagGTCTTTCAGAGTGCTGCACTTTTTGATTCTTTAACTGTTCGTGAAAATGTTGGTTTCCTTTT

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: EFJ30431 (Selaginella moellendorffii), 3'ss of exon 3
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
                                        |  | | | |    | | || | |   | | | | ||| |    |   |  |   | ||||| |||||||| || || || |||||||| ||||||||||| |||||||| |||||  |  |
---------------------------------------gtaacgt-actgaactat-gcctttaccgtccgtgtattatcggcttacga-gctttgcagGTTTTTCAAAGCGCAGCGCTGTTTGATTCGCTCACAGTTCGAGAAAATGTCGGATTTATGCT

upper sequence: GRMZM5G868168_T04 (Zea mays), 3'ss of exon 5
lower sequence: EFJ22908 (Selaginella moellendorffii), 3'ss of exon 3
gtacatattctttgtgctttgttgcatctgtactaagaaatggcatgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
                                        |  |||  |   ||    |  | |   ||| | | ||| |    |   |  |   | ||||| |||||||| || || || |||||||| ||||||||||| |||||||| |||||  |  |
---------------------------------------gtaacatactgaacta--cgtctttaccgcccgtgtattatcggcttacga-gctttgcagGTTTTTCAAAGCGCAGCGCTGTTTGATTCGCTCACAGTTCGAGAAAATGTCGGATTTATGCT

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|50324151|gb|CO519277.1|CO519277
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|78120174|gb|DV538558.1|DV538558
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|154130463|gb|EC872173.2|EC872173
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|148986921|gb|EE030732.2|EE030732
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|78103984|gb|DV522402.1|DV522402
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|76931706|gb|DV172823.1|DV172823
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|149004790|gb|EE039293.2|EE039293
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|91048130|gb|EB158548.1|EB158548
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|31356046|gb|CD440403.1|CD440403
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAACGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|31350150|gb|CD434507.1|CD434507
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAACGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|149078033|gb|EE166771.2|EE166771
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|149080766|gb|EE169831.2|EE169831
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCNAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|33467141|gb|CF244190.1|CF244190
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|19057652|gb|BM736319.1|BM736319
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAACGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
EST: gi|211065956|gb|FK946601.1|FK946601
EST:     GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTG                         GTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT
genomic: GGCATGGTTTAGTTAGCGATGAGGATATAGAGGGTCTCCGCATTGGTTTGgtacatattc ... tgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttccttgtagcttcttgtgcctgagcattctgatgtggtgttgtgatacagGTCTTTCAAAGTGCTGCACTTTTTGATTCTCTCACAGTTCGTGAAAATGTTGGATTCCTTTT
                               ttctgat  putative branch site (score: 3)