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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgtttttgactcagcaaatgtctttcatgcccatggtaataatagtattcttacaggtgctccttggcgcacaaaaggaacctatgcttgttttatg...

Basic information

species Zea mays
transcript GRMZM2G109315_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109315_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g16550.1 (Oryza sativa), 5'ss of exon 2
CCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgtttttgactcagcaaatgtctttcatgcccatggtaataatagtattcttacaggtgctccttggcgcacaaaaggaacctatgcttgttttatg----
||| || ||  ||||||||||||||||| ||||||| ||||||||||||||||||||||| ||||||||||| ||||| |||||||||||||||||||||||||| |||||||||   || | |   |     || || || ||  ||  |  | ||      ||   |   |  | |       ||||||  |||| |     
CCATATAACCAGAGGTGAATATGATGAGGATGCTCGTTACCCAGAGACTAAGACACTTACTATTGGTCAGTTCAAGCTAGGGCTGTGCCATGGTCATCAGgtttgcttttgactctagaactattacttg---ccttgttagtatgagcttcatgaccatgaatcagggatac-tagacttttaatatgctacttttttagaac

upper sequence: GRMZM2G109315_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G43610.2 (Glycine max), 5'ss of exon 4
CCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgtttttgactcagcaaatgtctttcatgcccatggtaataatagtattcttacaggtgct--ccttggcgca-caaaaggaacctatgcttgttttatg
 || || ||| | ||||| ||||| ||  |  |   ||| || ||||| || ||||| || ||||| || |||||||| || || ||||||||||||||||| || ||||||  | |  | | | |  | ||    |  | | ||| |   |   | |  ||    | | || | | || ||||||  ||   || || |   
GCATATAACTCGTGGTGAGTATGACGAAGAGACAAAATATCCGGAGACCAAAACACTAACCATTGGCCAATTTAAGCTGGGACTATGCCATGGTCATCAGgtctgattttgagactgatattatttgccctgttttttctta-aatggacctaagaaaattgggagcatgggtgaatcataaggaaattaccttttttctt--

upper sequence: GRMZM2G109315_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0026g01860.t01 (Vitis vinifera), 5'ss of exon 3
CCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttt---ttgactcagcaaatgtctttcatgcccatggtaataatagtattct---tacaggtgctccttggcgcacaaaaggaacctatgcttgttttatg
 ||  | ||  ||||||||||||||||  || | || ||||  ||||| |||||||||||||| ||||| |||||||||||  | ||||||||||||||||| ||| |   ||  ||| |    | |||  ||||    | |   |   || |||     || | ||| | | |         | | |    || |   |      
GCATGTCACCCGAGGTGAATATGATGAAGATTCACGTTACCTGGAGACCAAGACACTTACAATCGGTCAATTTAAGCTTGGAGTATGCCATGGTCATCAGgtctgtctggttttcctctgtctgt-tctgacatgtggcttgatttttaaggattgcaaataaatgtgttacataataatttgatgaattggattccaatc-----

upper sequence: GRMZM2G109315_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv17s0000g05880.t01 (Vitis vinifera), 5'ss of exon 2
CCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgtttttgactcagcaaatgtctttcatgcccatggtaataatagtattcttacaggtgctccttggcgcacaaaaggaacctatgcttgttttatg----
 || |||||  ||||||||||||||||| |  | || ||||||||||| || |||||||| |||||||| || |||||||| || ||||||||||||||||||   |||| | ||   |   |  | |  |    ||| | | ||    || | | || ||            | | |  ||   | | |  | | ||      
GCATATTACCCGAGGTGAATATGATGAGGAGACACGTTACCCAGAGACCAAAACACTTACCATTGGTCAATTCAAGCTTGGACTATGCCATGGTCATCAGgttcaattttcattccctattggcatcttttcttgatgattacaa----atccgtgcatgtttcttacaagtaaaacatcgagattctacaggatatagatgga

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|211369493|gb|FL308198.1|FL308198
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCC-TGGCGA
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGA
EST: gi|40485903|gb|CK394797.1|CK394797
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|71325098|gb|DR799236.1|DR799236
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|71325100|gb|DR799237.1|DR799237
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211009571|gb|FL317975.1|FL317975
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCGAC-TGGACTCCCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTG
EST: gi|211176838|gb|FL323305.1|FL323305
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTN-TTCCATGGGGCGACCTGGACTC
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTC
EST: gi|211232898|gb|FL333506.1|FL333506
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211118698|gb|FL310241.1|FL310241
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|22546134|gb|BU098454.1|BU098454
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211020754|gb|FL319300.1|FL319300
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCG
EST: gi|211193895|gb|FL366183.1|FL366183
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGC
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGC
EST: gi|211401794|gb|FL336231.1|FL336231
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCGA
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGA
EST: gi|211043425|gb|FL323570.1|FL323570
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211532406|gb|FL360254.1|FL360254
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGNACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211021189|gb|FK989215.1|FK989215
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAR                         GTTGTTCCATGGGGCGACCTGGACTCCCT
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCT
EST: gi|71448803|gb|DR829853.1|DR829853
EST:     AGACACTTACCATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGTACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211010276|gb|FL346585.1|FL346585
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGC-ATGGTCATCAG                         GTTGTTTCCATGGGGCGACCTGGACT
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTT-CCATGGGGCGACCTGGACT
EST: gi|76281764|gb|DV021332.1|DV021332
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|211464686|gb|FL320048.1|FL320048
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTCCCATGGGGCGAC-TGGACTCCCTGGCGATGCTCCA
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCA
EST: gi|47961557|gb|CN844266.1|CN844266
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCGTCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|87157240|gb|DY402029.1|DY402029
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
EST: gi|21987376|gb|BQ778904.1|BQ778904
EST:     AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAG                         GTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG
genomic: AGACACTTACAATTGGTCAGTTTAAGCTTGGGCTGTGCCATGGTCATCAGgtttgttttt ... cgaacatcagGTTGTTCCATGGGGCGACCTGGACTCCCTGGCGATGCTCCAGCGGCAGCTG