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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtcgttttttcttcacaagttacgtctaggaacgcttaatgtttgtttgttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTTTCGTCTCAATCCAAACGAATGGGGAG

Basic information

species Selaginella moellendorffii
transcript EFJ32604
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ32604 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 4
gta-ggtcgttttttcttcacaagttacgtctaggaacgcttaatgtttgtt-----tgttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCA-CTAGAAGCTTTTCGTCT-CAATCCAAACGAATGGGGAG---------------------------------
||| ||| | ||    |  |   ||| | | |    |   |   ||  ||||     ||||   |||            |  |||   |    |||   ||   ||    || |  ||| |  || | |  | |   |  ||     |                                 
gtacggttgattgcgttctatcggttgcctttgttcagattatttgggtgttaaaaatgtttaatctgaaagagaaatcagTGCCTGATGGGAGTGAATGATGTGAATTTCTGGTGGCTCTGGGTTTTCCTTGCGTGCAGATACATTGATATGGCCGAGTCATTGTGCCAGAAACGTGCTT

upper sequence: EFJ32604 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: LOC_Os03g52840.1 (Oryza sativa), 3'ss of exon 4
------------------------------------------------------------------------gtaggtcgttttttcttcacaagttacgtctaggaacgcttaatgtttgtttgttcgttct------agGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTTTCGTCTCAATCCAAACGAATGGGGAG
                                                                          |  ||  |   |  |    ||| |    |  |||    |  ||  | |  |||     |      || | |||||||||||||||||| |||||||||||||| ||  | || || || ||  |  | |||    |||||||||
gtacggttgattgcgttctatcggttgcctttgttcagattatttgggtgttaaaaatgtttaatctgaaagagaaatcagtgcctgatgg-gagtgaatgatgtgaatttctggtggctctgggttttccttgcgtgcagATACATTGATATGGCCGAGTCATTGTGCCAGAAACGTGCTTTGGAGGCCTTCCGCTTGGACCCAGCGAAATGGGGAG
















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|169023493|gb|FE431404.1|FE431404
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169041587|gb|FE449548.1|FE449548
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169036059|gb|FE446765.1|FE446765
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169094385|gb|FE495585.1|FE495585
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169087333|gb|FE491746.1|FE491746
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169053831|gb|FE460922.1|FE460922
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169051134|gb|FE458681.1|FE458681
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169048578|gb|FE454447.1|FE454447
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169019270|gb|FE428183.1|FE428183
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169096116|gb|FE500276.1|FE500276
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169082303|gb|FE488046.1|FE488046
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169087154|gb|FE493101.1|FE493101
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169098871|gb|FE502268.1|FE502268
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169025097|gb|FE434697.1|FE434697
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169077299|gb|FE485601.1|FE485601
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169036890|gb|FE443850.1|FE443850
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169080654|gb|FE487175.1|FE487175
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169075645|gb|FE482031.1|FE482031
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169062067|gb|FE469152.1|FE469152
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|70670986|gb|DN839563.1|DN839563
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169074936|gb|FE483818.1|FE483818
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169088141|gb|FE493380.1|FE493380
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169053051|gb|FE462014.1|FE462014
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169061498|gb|FE469597.1|FE469597
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169032798|gb|FE438306.1|FE438306
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169019625|gb|FE427974.1|FE427974
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169097028|gb|FE498419.1|FE498419
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169047243|gb|FE456492.1|FE456492
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169088635|gb|FE491521.1|FE491521
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169087281|gb|FE491694.1|FE491694
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169030300|gb|FE440025.1|FE440025
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169102882|gb|FE505247.1|FE505247
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169035576|gb|FE445346.1|FE445346
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGAGATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169094800|gb|FE492951.1|FE492951
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169088706|gb|FE491540.1|FE491540
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169087447|gb|FE492224.1|FE492224
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169105943|gb|FE504303.1|FE504303
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
EST: gi|169075799|gb|FE482796.1|FE482796
EST:     AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGA                         GTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT
genomic: AACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTT

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: 35 (upstream exon), 35 (downstream exon)
Score: 46

AGAATTTTACTTCAACTTCAGTCATGCAAGCAGTGGGATCCATCATGACCAACAAGTATAGCGAGGGCTATCCAGGAGCTCGTTACTACGGTGGAAATGAgtaggtcgtt ... ttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTTTCGTCTCAATCCAAACGAATGGGGAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttcttcacaagttacgtctaggaacgcttaatgtttgtttgttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTTTCGTCTCAATCCAAACGAATGGGGAG
                             gcttaat  putative branch site (score: 46)
                                             ttcgttct  putative PPT
                               ttaatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtcgttttttcttcacaagttacgtctaggaacgcttaatgtttgtttgttcgttctagGTTCATTGATATGGCCGAGTCTTTGTGCCAGAAACGAGCACTAGAAGCTTTTCGTCTCAATCCAAACGAATGGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC