Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgggacatggcattgctttgctttgccacccctgatatttgtcttcttccccatctagctcagtctgagagcctgcgtatgaaacaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC

Basic information

species Zea mays
transcript GRMZM2G123029_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123029_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g04630.1 (Oryza sativa), 3'ss of exon 11
----gta-tgtatgggacatggcattgctttgctttgccacccctgatatttgtcttcttccccatctagc-tcagtctgagagcctgcgtatgaaaca-attgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC
    | |   ||    | ||| || | | | || |    | |  |     || |     |||  || | || | |       |   |  | |||||         ||||||||||| || ||||||||||| ||||| || ||||| |||||||||||||| |||||||| || |||||  |||||||||||     |   | |   
gtacgcagcataacttatatgccaatacctggcctcattatcattctgtcttctgaatctccaaatttcgcatgaactcacaaaattttgcatgaactttgccacagGATTCTTGGAGATGTCTTCATGGGTGCTTATCATACGGTTTTCGACTTCGGCAAAGACAGGATCGGGTTCGCTAAATCTGCATGAAGAGTGTATGTAGAT

upper sequence: GRMZM2G123029_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S99_158V6.1 (Physcomitrella patens), 3'ss of exon 12
------gtatgtatgggacatggcat-tgctttgctttgccacccctgatatttgtcttcttccccatctagctcagtctgagagcctgcgtatgaaacaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC
       | | |      ||||  |   | ||  ||||     | |    || |    | ||   ||   |  | | |     | |||| | | |     |||  ||||||||||| || || |||||||| |||||||| ||||||||||||||||| ||| |  |  | ||||||||     |||| |   |    | |  |   
aatcgtttgttttcttttcatgcaaggcgtttccctttattctctcacgaatatagaatatttttca--aaattgaattgtgaaacctgtgcacg---tgatt--agGATTCTTGGAGATGTGTTCATGGGGGCTTACCATACGGTGTTCGACTTCGGGAACCAGCGATTGGGCTTCGCTTTGGCTGCTTAGATCCCAAAATAATAT
















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|149100422|gb|EE186497.2|EE186497
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|78021643|gb|DV490030.1|DV490030
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|110208372|gb|EC890269.1|EC890269
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|14244924|gb|BG842862.2|BG842862
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|148999547|gb|EE036519.2|EE036519
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211114340|gb|FL479352.1|FL479352
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|32913325|gb|CF018137.1|CF018137
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|7204603|gb|AW559186.1|AW559186
EST:     ATCAGTGGGTTCATGGCGTATGACCTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|149078277|gb|EE167036.2|EE167036
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTTTCTG                         GATTTTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211417815|gb|FL246184.1|FL246184
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|194716863|gb|FK934022.1|FK934022
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|93012558|gb|EB638078.1|EB638078
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGTGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|13515812|gb|BG518088.1|BG518088
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|16927660|gb|BM080729.1|BM080729
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTATG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211453148|gb|FL447178.1|FL447178
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|6827002|gb|AW330645.1|AW330645
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|32859335|gb|CD999016.1|CD999016
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|45567994|gb|CK985848.1|CK985848
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|78109241|gb|DV527657.1|DV527657
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCCCCGCCGCGTGGTCCTCTCTG                         GATTTTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTGGATTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|149097402|gb|EE183255.2|EE183255
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|40303709|gb|CK348096.1|CK348096
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|6993891|gb|AW453105.1|AW453105
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|148980773|gb|EE027343.2|EE027343
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTTTG                         GATTTTTGGGGACGTCTTCATGGGAGCTTACCCCACGGTGTTTGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|18180292|gb|BM381502.1|BM381502
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211489971|gb|FL475496.1|FL475496
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|149066691|gb|EE286828.2|EE286828
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|110520668|gb|EE024852.1|EE024852
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTTTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211453149|gb|FL447179.1|FL447179
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211401889|gb|FL450336.1|FL450336
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|60358971|gb|DN225944.1|DN225944
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|6695716|gb|AW288794.1|AW288794
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|5510772|gb|AI857156.1|AI857156
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|91876727|gb|EB406684.1|EB406684
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|91876845|gb|EB406802.1|EB406802
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|110943954|gb|EE164111.1|EE164111
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|211505620|gb|FL458319.1|FL458319
EST:     ATCAGTGGGTTCATGGCGTATGACGTSCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|33104124|gb|CF064084.1|CF064084
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTG                         GATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG
EST: gi|148987680|gb|EE031561.2|EE031561
EST:     ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTTTTTG                         GATTTTTGGGGACGTCTTCATGGGAGCTTACCACCCGGTGTTTGACTTCGG
genomic: ATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGG

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 4 RNA-Seq libraries.


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 147

TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1317

TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1196

TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1413

TACATTGTGAAGCTGGAGCAAGGAGGCCAAACCGTCTGCATCAGTGGGTTCATGGCGTATGACGTGCCACCGCCGCGTGGTCCTCTCTGgtatgtatgg ... acaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcttcttccccatctagctcagtctgagagcctgcgtatgaaacaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC
                                           aaacaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtatgggacatggcattgctttgctttgccacccctgatatttgtcttcttccccatctagctcagtctgagagcctgcgtatgaaacaattgaagGATTCTTGGGGACGTCTTCATGGGAGCTTACCACACGGTGTTCGACTTCGGCAACGACAGGATTGGCTTCGCGGAATCTGCATGAGTGTGGAGAGCACTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA