Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT

Basic information

species Zea mays
transcript GRMZM2G029559_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 3'ss of exon 6
----gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
       | |       ||||||   | |  ||          || || | |||  | ||| || ||   || | |||| |||    || |    |  || ||||||||||||| |||||||||||||| || |||||||||||||| ||||||||||| ||||||||||||||||| ||||| || ||||| |||||||||||
ttatatctctttgattaccattatttg-tcatctgctcccaacttctgttgtgtatgaagttctgtg---aattgaactcaacatgtcttctcacttattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTTTGTGACTACAAATACAATGACGAGAACACTGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 3'ss of exon 7
-----gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcc-catgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
      |  |     || ||||||          | |       || || |  ||| | | |||| ||   || |  ||| || | | || | ||||||||  ||||||||||||| |||||||||||||| || ||||||||||||||||| |||||||| |||||||| |||||||| ||||| || ||||| |||||||||||
ttagttctctcttctacaccattatttctcatctaca--ccaacttctgttgagtttgaactgctgtg---aattgtactcaagttatcttctcatgtattg-cagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACTACAAATACAATGATGAGAACACCGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G09640.1 (Arabidopsis thaliana), 3'ss of exon 7
----gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagt-agtgctatgcacaagtcaactgaactcaactcccatgtatt--------ttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
    |   | | |    ||  ||    ||| |  | | |||| | |       ||| | ||   |  | |  | |    |    |||  ||  || |  |        | |||| |||||||||||||||||||||||||| ||||| || ||||||||||||||||||||||| || |||||||  ||||| ||||| ||  | ||||||||
gtgtgtggtgatatcttcctctacctagtttttca-gctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcagGATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACTACAAGTACAACGATGAGAACATGGTGTCATTTGTCACGCTCAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcac-aagtcaactgaactcaactcccatgtatttt-cagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
  |       || | | || | | || |   |  | | |     |     |   ||| |  |  |  |||   | ||   | ||      | |   || |||| |||||||||||||||||||| ||||| ||||| || |||||||||||||| |||||||| || |||||||  || || ||||| ||  | ||||||||
ttagaggggtactc-actatg-gtttatgggacatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S172_22V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------gcatttaaacaccccattaagcggttctcaaagttt-tgtttttgatctgt-tagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
                           | || |   || || |    | | || |       || || ||     | |  |    ||  ||    |  |||       |         |||   |||| |||||||| ||||  ||  | ||||| |  ||  ||||||||||||| |||||||||||||| ||||||  |||  | || ||||| ||||| |||||
gtacgtcttctaatgagcatatgatttaatttagagcctcagtc--tgatactgagcacccatgcttatggagaatgtcttgaccctcggcttgtgctaacgtggtggacgggttgaatatgc-cagGATTCTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAGTACAATGATGAGAACCAAGTCACTTTCGTGACCATGAATAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S33_218V6.1 (Physcomitrella patens), 3'ss of exon 6
---gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
      ||||  ||  | | |  || |   ||| ||| || | | | || | |  |  ||     ||  |     |   || |         | | |   |||| |||||||| ||||  ||| | || || |||||  ||||||||||||| |||||||||||||||||||||  |||  | |||||||||||||| || ||
gcactttttagtcattctagtctgcagag-tcagagtgtt-tctctcatgtctcggacgtttggggctgatagtgagctaatttggtggttgtatgtgg-cagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATTACAAGTACAATGACGAGAACCAAGTAACCTTTGTGACTATGAATAAAGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S71_218V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactga-actcaactcccatgtatttt--------cagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
                         |||| |        |   ||     | || | ||||   |   ||| || | |     ||       ||| || |   |||  |      | | ||        ||||||| ||||| ||||  ||  | ||||| |  ||  ||||||||||||| ||||| ||||| || ||||||  |||  | ||||||||||||||||||||
gtaagtttctattaatgaactcatgatttgagttatggttgtggcacaatttaatgatttgcactcattcttttcgcaa-atgattggtgtctcatcttatgttcatgtggtggttctgttgagtgcaacagGTTTTTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAATACAACGATGAGAACCAAGTAACATTTGTGACTATGAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S132_188V6.1 (Physcomitrella patens), 3'ss of exon 6
gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtatttt--cagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
|  ||| ||  |  || |  | | ||   ||| |    | |  | ||    | |     | ||  |    | | | |  |        ||   || |  ||||||||||||| ||||  ||  | || || |||||  ||||||||||||| |||||||||||||| || |||  |||  |||||||||| |||||||||||
gtttttgaat-ctgcactctg-gatttcgaaaatgccctctacgttcctgaaatttaaatttgtgccgacccattaatattgctgatgattgcttgtgacagGTTTCTGGGAGATGTTCGATGCTGAAGGTTACTCATTGTGGTTCTGTGATTACAAGTACAATGATGAAAACCAAGTTACGTTTGTGACCATGAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
                                     ||    |   ||||   | || |  ||   |     ||||  |  | |||||  | ||| |||| |||||||| ||||||||||| ||||| ||||||||||||||||| |||||||||||||| || |||||||| ||| | || ||||| |||||||||||
-------------------------------------gtacaagtggtgtttccattgat-cgcttgaaaatgctgattttga-tcccaaatctttgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

upper sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
                       || |     || ||    ||||||  ||   | ||||             |||| |||   |||| ||      |||| |||||||||||||||||||| ||||| ||||||||||||||||| |||||||||||||| || |||||||| ||| | || ||||| |||||||||||
-----------------------gtacaagtggtgtttccattgatcgcttgaaaatgctgatt---------ctgatctc--ttcccttg------cagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

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|31406015|gb|CD484747.1|CD484747
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60341186|gb|DN208159.1|DN208159
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|7304460|gb|AW600399.1|AW600399
EST:     GGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|5108282|gb|AI739995.1|AI739995
EST:     GAGGCTGTATTCTAACNCGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|4885899|gb|AI677019.1|AI677019
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9732286|gb|BE511038.1|BE511038
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60400022|gb|DN232829.1|DN232829
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9461816|gb|BE453919.1|BE453919
EST:     CGTGAGGTTGCTATTAAAG                         GTTTCTGGCACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|31349931|gb|CD434288.1|CD434288
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|211250756|gb|FL447432.1|FL447432
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|67018044|gb|CO446793.1|CO446793
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|213175370|gb|FM190159.1|FM190159
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTG
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTG
EST: gi|211244390|gb|FL238841.1|FL238841
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|31440873|gb|CD510304.1|CD510304
EST:     GAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9732285|gb|BE511037.1|BE511037
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9566225|gb|BE475734.1|BE475734
EST:     ACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: ACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|4753427|gb|AI657337.1|AI657337
EST:     CAACTTCCGTGAGGTTGCTATTAAAG                         GTTTNTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60353199|gb|DN220172.1|DN220172
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|88758473|gb|DY542842.1|DY542842
EST:     GAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTTTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|29130485|gb|CB381189.1|CB381189
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60353205|gb|DN220178.1|DN220178
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttagtagtgctatgcacaagtcaactgaactcaactcccatgtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT
                                              tattttc  CT-rich tract
                                           atgtatttt  TA-rich tract