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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTTGGTGCTAAGGGTAAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtacttgtcgaatgtttctgtcagattgcatgtttgatgctccatttgatatattgatatttctgttgagtgttgatttcttgttgtattggtagg...

Basic information

species Oryza sativa
transcript LOC_Os07g47580.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G009876_T01 (Zea mays), 5'ss of exon 3
TTGCTTGGTGCTAAGGGTAAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtacttgtcgaatgtttctgtcagattgcatgt-ttgatgctccatttgatatattgatatttctgt--tgagtgttgatttcttgttgtattggtagg
||| ||||||||||||| ||||||||||||||||| || ||||| ||||||||||||||||||||||||||||| | |||    || | ||||     ||   ||  |  ||    |  |  | | | |||| || |||  |   | |  |   |||   |  |   |   
TTGATTGGTGCTAAGGGCAAGAGGTTCGCCAAGAAACGCTATGCTGAGAAGGCACAGATGAAGAAGACgtaagtgcctgtttgctgctcctgtttatgtgttggtacttgtgtaatagatc-tgtgtggatagttgtgtaattgatatgaacaacttaagggctaattt--

upper sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G174204_T01 (Zea mays), 5'ss of exon 3
TTGCTTGGTGCTAAGGGTAAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtacttgtcgaatgtttctgtcagattgcatgtttgatgctccatttgatatattgatatttctgttgagtgttgatttcttgttgtattggtagg--
||| ||||||||||||| ||||||||||||||||| || ||||| |||||||| |||||||||||||||||||| |||||    || | || |    |||  || |   || |  | | |||||    |  |||  |||||    ||  | ||| ||  | || |  |  
TTGATTGGTGCTAAGGGCAAGAGGTTCGCCAAGAAACGCTATGCTGAGAAGGCGCAGATGAAGAAGACgtaagtgcttgtttgctgctcctatttatttg-gtgatacttg-tgtaatagatatgagcaactttaagttgatgcatggatacttcttagaatgatgcgcg
















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|87008746|gb|CI302901.1|CI302901
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|58689868|gb|CK078555.1|CK078555
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33653812|gb|CF276426.1|CF276426
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88395389|gb|CI611306.1|CI611306
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88302583|gb|CI668429.1|CI668429
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33688902|gb|CF317141.1|CF317141
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|86848058|gb|CI290577.1|CI290577
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218487556|gb|FG947559.1|FG947559
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88394705|gb|CI622579.1|CI622579
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218486392|gb|FG950823.1|FG950823
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|12622982|gb|AU173195.1|AU173195
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218488945|gb|FG960620.1|FG960620
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88351380|gb|CI627396.1|CI627396
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|29662524|gb|CB658799.1|CB658799
EST:     AGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218483549|gb|FG959691.1|FG959691
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|29668015|gb|CB664290.1|CB664290
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33813020|gb|CF332400.1|CF332400
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|87011090|gb|CI287767.1|CI287767
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218489207|gb|FG951304.1|FG951304
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218490089|gb|FG957774.1|FG957774
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33814059|gb|CF332914.1|CF332914
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|58681353|gb|CK070040.1|CK070040
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88333766|gb|CI643798.1|CI643798
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88570881|gb|CI662254.1|CI662254
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33658076|gb|CF280690.1|CF280690
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|58661138|gb|CK049818.1|CK049818
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAG                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATG
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATG
EST: gi|88330377|gb|CI633584.1|CI633584
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88364720|gb|CI612535.1|CI612535
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33657881|gb|CF280495.1|CF280495
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|86887864|gb|CI297975.1|CI297975
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33794028|gb|CF322904.1|CF322904
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88851570|gb|CI671010.1|CI671010
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|218480798|gb|FG956053.1|FG956053
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|38469043|gb|CF953174.1|CF953174
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33692111|gb|CF320350.1|CF320350
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88399306|gb|CI618496.1|CI618496
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAACAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|58678013|gb|CK066700.1|CK066700
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCGCAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGAGGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|33809375|gb|CF330567.1|CF330567
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
EST: gi|88330904|gb|CI638312.1|CI638312
EST:     AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGAC                         CCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA
genomic: AAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCA

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), 58 (downstream exon)
Score: 147

TTGCTTGGTGCTAAGGGTAAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtactt ... acacttgcagCCTGAAAATGCACGACGAGTCAACTTCTCGGCAGAAGGTTGATGATGTTCAAGAGGGTGCTCTTCCTCCATATCTGCTGGACCGTGATCAGACACAACGT




<











<


<









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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCTTGGTGCTAAGGGTAAGAGGTTCGCCAAGAAGCGGTATGCCGAGAAGGCACAGATGAAGAAGACgtaagtacttgtcgaatgtttctgtcagattgcatgtttgatgctccatttgatatattgatatttctgttgagtgttgatttcttgttgtattggtagg

- - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG