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

gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagcatcagcatcattaccgatataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA

Basic information

species Oryza sativa
transcript LOC_Os01g08700.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM5G844173_T01 (Zea mays), 3'ss of exon 12
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagca----tcagcatcattaccgatataaa-atatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                                 || |||  |||| |    |   |||| || ||    | | |  || | || || | || ||  |||| |||||| | |||  || |  || |        |||| ||||||||||||||||||||||| ||||||||| |||| || || ||||| ||||||||||||||||||||||| || ||||| ||||| ||||| ||||| |
------------------------------------------------------------------------------------------------tttttttgtttctgacagatctctttcgaaacacgttttaactacaatgcctatgtgaatatgcacccgtttcct-attcacgtttctagaat--------tttcgcagGCCGAGAAGGACTTGCAGCCTTGGATTGCTAGAGACGACGAACAAGGCCAGAAGATGTGGAGAGTCAACCAACGTATAGTGAAGCTTATAGCGGAGCTCA

upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G107101_T03 (Zea mays), 3'ss of exon 13
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagca----tcagcatcattaccgatataaaatat--acccatttcctcagtcatcttccccgactcttgtatcttt---cacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                                          ||| |  |||   ||||||| ||    | | |  || | || |  |  |||||  |||  |||||| |||||| || |  ||| ||| | | |||   | ||||||||||||||||||||||| ||||||||| ||||||| || |||||||||||||||||||||||||||||||| ||||| ||||| ||||| |||||||
----------------------------------------------------------------------------------------------------------tctgacatct--atttcaaaacacattttaactacaatgcctaggtggaatatggacctgtttcct-agtcatatttcttgacgcttattttttttttcgcagGCCGAGAAGGACTTGCAGCCTTGGATTGCTAGAGATGACGAACAAGGTCAGAAGATGTGGAGAGTCAACCAGCGTATAGTGAAGCTTATAGCTGAGCTTA

upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA10G36600.2 (Glycine max), 3'ss of exon 12
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagcatcagcatcattaccgatataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                    || || |  |   ||  | |||| | || | ||  | | |||     |  || ||| || | ||          ||  |  | |||||  ||||  | |  |||| |  ||  ||||| |||  ||| |||||||||||||||||    ||||||||   ||||||||||||||||||| |||| ||||| || || ||  |||| |  || ||||
-----------------------------------------------------------------------------------atctatccaatg--tttatctgttgt-atatttttttattaaa----tattattatttcccacat--------ttcacatgtttagtcactttcctgggc--ttgtttacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAGAAGATGTGGAGAATCAATCAGCGGATTGTAAAATTGATTGTGGAACTTA

upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 6
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagcatcagcatcattaccgatataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                    || || |  | | || |||  |   ||||| ||  ||  |||  ||    || |||||| | ||          |||||    |||||  ||||  | |  |||| |  ||  ||||| |||  ||| |||||||||||||||||    ||||||||   ||||||||||||||||||| |||| ||||| || || ||  |||| |  || ||||
------------------------------------------------------------------------------------tctatccaat-gtttatttgttgtacatttttt--ttataaattatt---attattacccacat--------ttcatttgtatagtcactttcctgggc--ttgtttacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTTAGGTCAGAAGATGTGGAGAATCAATCAGCGGATTGTGAAATTGATCGTGGAACTTA

upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA09G07240.2 (Glycine max), 3'ss of exon 12
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagcatcagcatcattaccgatataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                           || ||      |  | || |  | |  ||| |||| || |  |    ||   ||| |    |  |   ||||| |   |||||  ||  ||||  |   |  ||  |||||||||||||| |||||||| ||||||||   ||||||  | | |||||||||| |||||||| |||| ||||| || || ||  ||||| | || ||  
------------------------------------------------------------------------------------------atgcagaagagctcat-ctaacctgt--gttccaaatcagcttccattttgtagattttt--ttaaaatatttcatttttcatc--ccttgacttgt---tgcttgtcagGCCGAGAAGGAATTGCAGCCATGGATTGCCAAAGATGACAATCTAGGTCAGAAGTTGTGGAGAATCAATCAGCGGATTGTAAAATTGATAACTGAACTAT

upper sequence: LOC_Os01g08700.2 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 13
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggt-ttcaaagcatcagcatcattaccgatata----aaatatacccatttcct-cagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                                                                                        | | |   ||   ||| | |||| || || | |  || |   | ||    || |  | |||  || |  | |||  ||    |    |||| |  ||  ||||| |||| ||| |||||||| |||||||||  ||||||||| | ||||||||||||||||||| |||||||  |||| || ||  |||| |  ||||| |
--------------------------------------------------------------------------------------------------------gatgttgcttgcaggtgtccaaatcagcaacttattttctagtctattttaagttcaaccacatcatatactcacttttattg--cattgtgtgcttgtcagGCTGAGAGGGAATTGCAGCCTTGGATTGCTAAAGATGATGATCTAGGTCAGAAGATGTGGAGAATCAACCAAAGAATTGTAAAATTGATCGTGGAGCTAA

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|33794177|gb|CF322979.1|CF322979
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86873316|gb|CI341541.1|CI341541
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88689129|gb|CI732705.1|CI732705
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|33684724|gb|CF312963.1|CF312963
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|396941313|gb|HO188522.1|HO188522
EST:     ACGTTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86884433|gb|CI337001.1|CI337001
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTCCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|38481214|gb|CF965303.1|CF965303
EST:     ACGTTGTTTCAGCGTCGGCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88689326|gb|CI732902.1|CI732902
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88690745|gb|CI734824.1|CI734824
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|33793269|gb|CF322515.1|CF322515
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|29668032|gb|CB664307.1|CB664307
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGA
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGA
EST: gi|88689955|gb|CI734034.1|CI734034
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88691766|gb|CI733343.1|CI733343
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88690455|gb|CI734534.1|CI734534
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86872020|gb|CI333181.1|CI333181
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGGTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88273155|gb|CI388611.1|CI388611
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88691375|gb|CI733958.1|CI733958
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|55410210|gb|CV722586.1|CV722586
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86599150|gb|CI355767.1|CI355767
EST:     TCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTCCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: TCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|29666878|gb|CB663153.1|CB663153
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|38477853|gb|CF961986.1|CF961986
EST:     ACGTTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCT
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCT
EST: gi|86885526|gb|CI318677.1|CI318677
EST:     ACATTGTTTCACCCTCACCGACCAAGGCTTCACCTGCAATCGTTCTGCAG                         GCCGAGAAGGACTTCCACCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88690675|gb|CI734754.1|CI734754
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|88689073|gb|CI732649.1|CI732649
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|29657062|gb|CB653337.1|CB653337
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86905138|gb|CI289285.1|CI289285
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAG
EST: gi|86860507|gb|CI323433.1|CI323433
EST:     ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAG                         GCCGAGAAGGACTTGCAGCCCCTGGATTGCTCGAGATGATGAGCAAGGTCA
genomic: ACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAG-CCCTGGATTGCTCGAGATGATGAGCAAGGTCA

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 1 RNA-Seqlibrary.


Block sizes: 74 (upstream exon), 75 (downstream exon)
Score: 89

GTTGTGGATGCGCTTTGTGACATTGTTTCAGCCTCACCGACCAAGGCTTCAGCTGCTATCGTTCTGCAGgtcaagatat ... tctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA
                                     ctcttgtatctttc  CT-rich tract
     aatata  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcaagatattgttattgttatatttacatacttgttatcatatttaaaagcttcatattgtatgtacctttgaaaaaaaaagttccatactgtagcttcttttgttctcatttcttggtttcaaagcatcagcatcattaccgatataaaatatacccatttcctcagtcatcttccccgactcttgtatctttcacagGCCGAGAAGGACTTGCAGCCCTGGATTGCTCGAGATGATGAGCAAGGTCAGAAGATGTGGAGAGTCAACCAGCGAATAGTTAAGCTGATAGCAGAGCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT