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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgcgtgaatcatttcctttccgggctatgctcacagctaccgatgagagttattattggcgccaatcttttttgacag

Basic information

species Zea mays
transcript GRMZM2G146463_T03
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146463_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os07g26900.1 (Oryza sativa), 5'ss of exon 10
ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgcgtgaatcatttcc-----------tttccgggctatgctc----acagctaccgatgagagttattattggcgccaatcttttttgacag--------
| |||||||||||||||||||| || ||||| ||| || || ||||||||||||||||| ||||||| ||||| || ||||||||  |   ||    | ||| ||            | || |  || || ||     |   | | | ||||| |  | | ||   |  || ||| |  |           
ATCCTGACATGCTGGAGGTCGGCAATGGAGGGATGACGAACGACGAGTACGTCGTGCACATCAGCCTTTGGGCGATTGCCAAGgttggttggcacacaccatctctgaaaatcttgatctctgatctctggtctttgtcgaattcagttgagattcttgaatgattcttatgtttgtgaatgcttttgcag
















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|22935898|gb|BU572173.1|BU572173
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTGTGGGCCATCGCCAAG                         GCTCCCCTGATCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTG
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|71443279|gb|DR824329.1|DR824329
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|86465787|gb|DY232160.1|DY232160
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|78113278|gb|DV531670.1|DV531670
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|86466262|gb|DY232634.1|DY232634
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCTCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|22472587|gb|BU037067.1|BU037067
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTGTGGGCCATCGCCAAG                         GCTCCCCTGATCATCGGCTGCGACGT
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGT
EST: gi|71443417|gb|DR824467.1|DR824467
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|50334851|gb|CO529977.1|CO529977
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTTTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|60357458|gb|DN224431.1|DN224431
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|87157241|gb|DY402030.1|DY402030
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTGTGGGCCATCGCCAAG                         GCTCCCCTGATCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTG
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|91874598|gb|EB404555.1|EB404555
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGTTGGGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|60338146|gb|DN205119.1|DN205119
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|78113279|gb|DV531671.1|DV531671
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGGCATCGCCAAG                         GCTCCCCTGGTCATCGGC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGC
EST: gi|23199550|gb|BU582115.1|BU582115
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTGTGGGCCATCGCCAAG                         GCTCCCCTGATCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTG
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|71318125|gb|DR795824.1|DR795824
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|91054334|gb|EB164752.1|EB164752
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|89763955|gb|DY690933.1|DY690933
EST:     TACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|149055655|gb|EE156360.2|EE156360
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|78075208|gb|DV503642.1|DV503642
EST:     AGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATTGGGTGGGACGTGACGAGAGTCTCCAATGAGACGCTG
genomic: AGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|87156914|gb|DY401703.1|DY401703
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTGTGGGCCATCGCCAAG                         GCTCCCCTGATCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTG
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|78088430|gb|DV516823.1|DV516823
EST:     TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG                         GCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
genomic: TGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC
EST: gi|89763171|gb|DY690487.1|DY690487
EST:     CCATCGCCAAG                         GCTCCCCTGGTCATGGGGTGGGACGTGACGAGAGTTTCCAATGAGACGCTC
genomic: CCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 35 (upstream exon), 43 (downstream exon)
Score: 39

ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG


Block sizes: 35 (upstream exon), 49 (downstream exon)
Score: 13

ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG


Block sizes: 35 (upstream exon), 49 (downstream exon)
Score: 13

ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG


Block sizes: 35 (upstream exon), 49 (downstream exon)
Score: 11

ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAGgtgcgcgcgc ... tttttgacagGCTCCCCTGGTCATCGGCTGCGACGTGACGAGAGTCTCCAATGAGACGCTCGGAATCCTCTCCAACGCGGAGGTCATCGCGATCAGCCAAG