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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaaacctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC

Basic information

species Oryza sativa
transcript LOC_Os06g29180.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 6
gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcat--gaaaacctca--ttcttccttctcagGATATGGT--GGTGA-TGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC-------------
                          || |  |    ||||  ||   ||| |  ||    || ||   ||   ||  | |||  |||  |||  |||  |||           || || | || |||||||  | |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| || |||||||||||             
-------------------------ggactcgt-ttatatttctaacgctaacccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcaccccccctctaggcgactatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G147714_T01 (Zea mays), 3'ss of exon 5
--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
  |  | |  || |    || | ||    ||| ||||       ||||| |||  |||| |  || ||  | || |||| |  | |||||||    ||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||||||||
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 3
--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
  |  | |  || |    || | ||    ||| ||||       ||||| |||  ||||    || ||  | || |||| |  | |||||||    ||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||| ||||||| ||||||||||||||
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
  |  | |  || |    || | ||    ||| ||||       ||||| |||  |||| |  || ||  | || |||| |  | |||||||    ||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| |||||| |||||||
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G049811_T01 (Zea mays), 3'ss of exon 4
--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
  |  | |  || |    || | ||    ||| ||||       ||||| |||  |||| |  || ||  | || |||| |  | |||||||    ||| ||||||| ||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||||||||
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttcccagGATACGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA13G23790.4 (Glycine max), 3'ss of exon 4
gtgtcctattgaaaaaaaaattataagaatgatgccg-tattaatatttctatcttgatcaatatttcctttagcatgaaaacctcattcttccttct-cagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
 |  |  | |      |  ||  |  |  || ||    ||||  | |||   |    || | || ||     | | |     |     ||||  ||||  ||| ||| |||||||||| |||||||| || ||||| ||||||||||| |||||||| |||||||| || ||||||||||| |||||||| ||||| || ||
-tccctaagttctgttatgatcctttgt-tgttgttactattcctttttaagttgcaattactaattttgccatcctctttcctaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA19G01200.1 (Glycine max), 3'ss of exon 4
--gtgtcc-tattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaaacctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
   ||| | ||||   |   || || |    | | || |  | |  ||  ||    ||| | | | ||| ||||  | |   ||  |  |  |   |    ||| |||||||||||||| |||  |   |||||||| |||||||| || |||||||| |||||||| || ||||||||||| |||||||| ||||| || ||
gtttgttcatattcccatctaagttgttcaga-ggtggcaaagttttacatcatcattgctaattgttttcttttcctttccaaatt--tcttaaatctatagGCTATGGTGGTGATGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA19G01210.4 (Glycine max), 3'ss of exon 4
gtgtcctattgaaaaaaaaattataagaatgatgccg-tattaatatttctatcttgatcaatatttcctttagcatgaaaacctcat-tcttccttct-cagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
   | || ||   |      || |  |  || ||    ||||  | |||   |    ||   || ||  |||          ||  || ||||  ||||  ||| ||| |||||||||| |||||||| |||||||| ||||||||||| |||||||| |||||||| || ||||||||||| |||||||| ||||| || ||
---ttctgttatgatcctttttttttggttgttgttactattcctttttaagttgcaattgctaatttttttcatcctctttccaaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAACCAGCTCCAAAGGATCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGTACCAC

upper sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv14s0066g01320.t01 (Vitis vinifera), 3'ss of exon 4
---gtgtcctattgaaaaaaaaattataagaatg----atgccgtattaatatttctatcttgatcaatatttcctttagcatgaaaacctcattcttcc--ttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
    |||   |         |  || |  || |     |||  || | ||| ||||| | |       | |       |        |  | | | |||   || ||||| ||  |||| ||||| ||||  || || ||||| || ||||| || |||||||| |||||||| || || || |||||||||||||| ||||| || ||
gtaatgtttcagcacttttgagtttcttggatttgagtatgttgt-tcaatgtttctttttatgcagttttgaaagccaatgacttcattttaattttctgattttcagGTTACAGTGGGGATGTTTGGTATCCACAGCCAGCCCCCAAGGACCATCCATGGCGGTACATGCCAAACCAAGCTATGACCCCTCATATTTCTGGCACCAC

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|86488907|gb|CI131540.1|CI131540
EST:     CGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86823485|gb|CI256430.1|CI256430
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86431483|gb|CI085094.1|CI085094
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86850859|gb|CI338835.1|CI338835
EST:     GTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: GTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29669367|gb|CB665642.1|CB665642
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTTTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTTTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86601912|gb|CI258588.1|CI258588
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86843388|gb|CI341461.1|CI341461
EST:     CAGGCGGTTCCAAACGCTTGCTCTAGTGGTCAACTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88837645|gb|CI079005.1|CI079005
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|699928|gb|D46219.1|D46219
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86893803|gb|CI314856.1|CI314856
EST:     GGTTGCAGACGCTTGCTGTAGTGGTCAAGTTGCAG                         GATATGGT-GTGATGTCT-GTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: GGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|89176567|gb|CI111606.1|CI111606
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCGACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86874582|gb|CI318141.1|CI318141
EST:     CAT-GATACCCAGGCGGTTGCAAACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86413220|gb|CI067625.1|CI067625
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|3767616|gb|AU031643.1|AU031643
EST:     CATGGATACCCAGGCGTTTNCAGACGNTTGCTCTAGTGGTCAATTTNCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCNT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88981870|gb|CI027448.1|CI027448
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86874621|gb|CI318180.1|CI318180
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         TATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAA-GATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86893165|gb|CI313350.1|CI313350
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88845518|gb|CI084443.1|CI084443
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88202523|gb|CI200878.1|CI200878
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29659276|gb|CB655551.1|CB655551
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86252284|gb|CI056021.1|CI056021
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29646500|gb|CB651507.1|CB651507
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88830039|gb|CI074711.1|CI074711
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|427637|gb|D23770.1|D23770
EST:     CATGGNTACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GCTATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGGTCCACCC-
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATC-ACCCA
EST: gi|29666820|gb|CB663095.1|CB663095
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|33658448|gb|CF281061.1|CF281061
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29662259|gb|CB658534.1|CB658534
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86254034|gb|CI058761.1|CI058761
EST:     CCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88271610|gb|CI387663.1|CI387663
EST:     CGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|702431|gb|D48722.1|D48722
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86538067|gb|CI178273.1|CI178273
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88320451|gb|CI523194.1|CI523194
EST:     GTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: GTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88272749|gb|CI386604.1|CI386604
EST:     AGTGGTCAAGTTGCAG                         GATATGGTGGTGATG--TGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: AGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|11173099|gb|AU164612.1|AU164612
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|58696127|gb|CK084814.1|CK084814
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|2311656|gb|C27811.1|C27811
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTNGTGATGTCTTGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86414768|gb|CI069171.1|CI069171
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|313079527|gb|HO213085.1|HO213085
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88829585|gb|CI074455.1|CI074455
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86823497|gb|CI256438.1|CI256438
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88264232|gb|CI368006.1|CI368006
EST:     CTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88265074|gb|CI368848.1|CI368848
EST:     GACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: GACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88413719|gb|CI528491.1|CI528491
EST:     AGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: AGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29658973|gb|CB655248.1|CB655248
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|29663026|gb|CB659301.1|CB659301
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88904320|gb|CI002053.1|CI002053
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|163918002|gb|EG714772.1|EG714772
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88850094|gb|CI091389.1|CI091389
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCGGGTTCCCCCAACAAGCACCAAAGGATCACCCAG
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|89197803|gb|CI013793.1|CI013793
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86889576|gb|CI318767.1|CI318767
EST:     ATACCCAGGC-G-TGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATA-AGTGGTAATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: ATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86832582|gb|CI345016.1|CI345016
EST:     CGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88264544|gb|CI368318.1|CI368318
EST:     GGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: GGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88837778|gb|CI079138.1|CI079138
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|86426676|gb|CI071773.1|CI071773
EST:     CATGGAAACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
EST: gi|88832466|gb|CI019407.1|CI019407
EST:     CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAG                         GATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT
genomic: CATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCAT

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: 75 (upstream exon), 74 (downstream exon)
Score: 125

GCAAAGATGAAGAAAGGTGTAATCATTGTGAATAATGCTCGAGGAGCAATCATGGATACCCAGGCGGTTGCAGACGCTTGCTCTAGTGGTCAAGTTGCAGgtaccatcat ... tccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctatcttgatcaatatttcctttagcatgaaaacctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
      tcttgat  putative branch site (score: 125)
                                    cctcattcttccttct  putative PPT
           atcaatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaaacctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC

- - - - - -aaaaaaa
- - - - - - - - - - - - - - -tgatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgaa