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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtaattgttaatagatcttatgtgcatctcggtctttgaaacattgatgtattgtagcgagcctattcattttcgctgagatctaaacacttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT

Basic information

species Oryza sativa
transcript LOC_Os07g05580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g05580.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G139900_T01 (Zea mays), 3'ss of exon 1
tagtaat-tgttaatagatcttatgt-gcatctcggtctttgaaacattgatgtattgtag-cgagcctattcattttcgctgagatctaaacacttttacagGGA---GGAGACCCCAGTTGAGACTC---CAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT
|  | ||   || |||||  ||   | |||  |  || |   | || |||| | ||| |   |  || |  ||| || | |  |  | |    | ||| |||| ||   |||| |||||||||    |    || |  |||| |||||||| ||||| |||||  |||||||||| |||||||| ||||||||||||||||||      
tgttgatacttttatagactttgcattgcaaatttgtttgatatac-ttgaagcattttgttcctgcattgtcaatt-caccaaattgttctta-tttgacagTGATCAGGAGGCCCCAGTTGCAGTTGAGGCACCAACCCCAGTTCTTGGAGAGCCAATGGACTTGATGACTGCGCTGCAGCTGGTGATGAAGAAGTCAAGT------

upper sequence: LOC_Os07g05580.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G063340_T03 (Zea mays), 3'ss of exon 2
-tagtaattgttaatag--atcttatgtgcatctcggtctttgaaacattgatgtattgtagcgagcctattcattttcgctgagatctaaacacttttacagGGAGGAGACCCCAGTTGAGACTC---CAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT
   |||  |||| |||   ||||    |         | ||||  | | | ||   || | ||      |||     |     | ||                  ||||| ||||||| | |  |    || |  |||| |||||||||||||| |||||  ||||||||||||||||||| ||||||||||||||||||      
gcggtatatgttgatactcatctagcctttgcaaaattgtttgttatagttattgctttttgctcctgcattgtcaattcaccaaattctggtttggcagTGAACAGGAGGCCCCAGTCGCGGTTGAGGCACCAACCCCAGTTCTTGGGGAGCCTATGGACTTGATGACTGCTCTGCAGCTCGTGATGAAGAAGTCAAGT------
















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|88327950|gb|CI648352.1|CI648352
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|163927962|gb|EG714270.1|EG714270
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|38483295|gb|CF967097.1|CF967097
EST:     CTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAATTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: CTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88366407|gb|CI610702.1|CI610702
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|163926277|gb|EG711853.1|EG711853
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88580769|gb|CI697720.1|CI697720
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88349278|gb|CI678255.1|CI678255
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33684771|gb|CF313010.1|CF313010
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88586490|gb|CI704191.1|CI704191
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33688323|gb|CF316562.1|CF316562
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|8527973|gb|AU092788.1|AU092788
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCCA
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAG-CCCA
EST: gi|88467092|gb|CI696451.1|CI696451
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88692496|gb|CI736071.1|CI736071
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCACCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88354665|gb|CI629097.1|CI629097
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33689052|gb|CF317291.1|CF317291
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|11025648|gb|AU162249.1|AU162249
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|8324531|gb|AU091678.1|AU091678
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|8527976|gb|AU092791.1|AU092791
EST:     ATCGTTTCGTCCCAGTCGGTGTTTCCGGTCTTTTGAGCCCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTG-TTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58686766|gb|CK075453.1|CK075453
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58590733|gb|CF989041.1|CF989041
EST:     ATCGTTTCGTCGGAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|286862|gb|D15669.1|D15669
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58589151|gb|CF987459.1|CF987459
EST:     AGATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: AGATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|8528009|gb|AU092824.1|AU092824
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|86887814|gb|CI297925.1|CI297925
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|218485100|gb|FG946937.1|FG946937
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAATTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88694486|gb|CI738524.1|CI738524
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88692391|gb|CI735966.1|CI735966
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88691248|gb|CI733832.1|CI733832
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58689955|gb|CK078642.1|CK078642
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33689053|gb|CF317292.1|CF317292
EST:     TTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: TTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|11442873|gb|BF430772.1|BF430772
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAATTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33688161|gb|CF316400.1|CF316400
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCAGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|25800831|gb|CA756792.1|CA756792
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAATTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88442858|gb|CI694262.1|CI694262
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33824839|gb|CF338229.1|CF338229
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|4878947|gb|AU063246.1|AU063246
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58597428|gb|CK007956.1|CK007956
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|2311826|gb|C27981.1|C27981
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33687599|gb|CF315838.1|CF315838
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33656039|gb|CF278653.1|CF278653
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88690736|gb|CI734815.1|CI734815
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|33691957|gb|CF320196.1|CF320196
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88332381|gb|CI656250.1|CI656250
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|4969241|gb|AU066145.1|AU066145
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88587499|gb|CI705250.1|CI705250
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58590187|gb|CF988495.1|CF988495
EST:     ATCGTTGCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAATTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88716858|gb|CI740368.1|CI740368
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|88574993|gb|CI666762.1|CI666762
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|14191523|gb|AU183734.1|AU183734
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|14191849|gb|AU184060.1|AU184060
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|86831420|gb|CI299478.1|CI299478
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
EST: gi|58603498|gb|CK014026.1|CK014026
EST:     ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGC                         GGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT
genomic: ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCAT

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: 68 (upstream exon), 75 (downstream exon)
Score: 105

ATCGTTTCGTCGCAGTCGGTGTTCCGGTCTTTTGAGCGCGGAGATGGCgtaagttctt ... acttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatgtattgtagcgagcctattcattttcgctgagatctaaacacttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT
                                     atctaaa  putative branch site (score: 105)
                                            cactttt  CT-rich tract
                    tattcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtaattgttaatagatcttatgtgcatctcggtctttgaaacattgatgtattgtagcgagcctattcattttcgctgagatctaaacacttttacagGGAGGAGACCCCAGTTGAGACTCCAGCTGCCCCGGTTCTTGGGGAGCCCATGGATCTGATGACTGCTCTGCAGCTTGTGATGAAGAAGTCAAGTGCTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - -gtgcatc
- - - - - - - - - - - - - - - - - - - - - - -ttgatgt