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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCCTTGAAAAGCAGAGCGGCTAAGGCTATTGGTTTTATTGATGACATGATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttgataattatgttgtgttatatcaggctcttcgttgtctcaataatgcagggttgacaatcctcaatggaaagtacacttcacattttatacacgtcagacttgtttaatgctgtttgaaccttcctctttctctgttttcaagtctattctgacaatatcactatcgtgtgttgatgtacag

Basic information

species Physcomitrella patens
transcript PP1S29_256V6.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S29_256V6.2 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GRMZM2G070422_T03 (Zea mays), 5'ss of exon 11
GTCCCTTGAAAAGCAGAGCGGCTAAGGCTATTGGTTTTATTGATGACATGATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttgataattatg--ttgtgttatatcaggctcttcgtt--gtctcaataatgcagggttgacaatcctcaa-tggaaagtacacttcacattttatacacgtcaga-cttgtttaatgctgtttgaaccttcctctttctctgttttcaagtctattctgacaatatcactatcgtgtgttgatgtacag
| || | ||| |||| |||||||| ||||| |||||||| | ||||| | ||||| | || ||||||||||||||| ||||||||| || ||| || | | | | | ||||| | | || ||| || | || | | | || ||| | | | | ||| | || || | ||| || | |||||| ||
GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGATAGAGTACTCATATGTTAATGCACCATTGCAGAAGGAGCTGTTGGCTGgtcagagttttgactcctccctttgttacttgtgacttgctgtttcatccccctatttgaaaggtggcaacctttttcttcacagtgctctcttttttcttaacaagtatgctcttgttgaacag-----------------------------------------------------------------------
















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|37845830|gb|BJ603838.1|BJ603838
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162169757|gb|FC345294.1|FC345294
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37845305|gb|BJ603313.1|BJ603313
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162182768|gb|FC359515.1|FC359515
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176593|gb|FC353062.1|FC353062
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720249|gb|BJ970508.1|BJ970508
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67727192|gb|BJ977451.1|BJ977451
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176348|gb|FC353533.1|FC353533
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18334218|gb|BJ166234.1|BJ166234
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67726751|gb|BJ977010.1|BJ977010
EST:     GATCAACTACTCCTCTGNTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162171617|gb|FC347558.1|FC347558
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162181163|gb|FC357608.1|FC357608
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162170699|gb|FC346286.1|FC346286
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37824766|gb|BJ582832.1|BJ582832
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18335658|gb|BJ167678.1|BJ167678
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67727852|gb|BJ978111.1|BJ978111
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162223700|gb|FC399772.1|FC399772
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162176594|gb|FC353063.1|FC353063
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCT
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCT
EST: gi|162223699|gb|FC399771.1|FC399771
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162182767|gb|FC359514.1|FC359514
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|162167231|gb|FC342796.1|FC342796
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|18333553|gb|BJ165568.1|BJ165568
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67725967|gb|BJ976226.1|BJ976226
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720690|gb|BJ970949.1|BJ970949
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|208375034|gb|DC944815.1|DC944815
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|37830091|gb|BJ588103.1|BJ588103
EST:     GATCAACTACTCCTCTGNTAATGCANCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
EST: gi|67720235|gb|BJ970494.1|BJ970494
EST:     GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAG                         ATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG
genomic: GATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttga ... tgatgtacagATGATGTAGGACATGCAGCTGCATTCTTGTCATCACCATTGGCTAGTGCTG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCCCTTGAAAAGCAGAGCGGCTAAGGCTATTGGTTTTATTGATGACATGATCAACTACTCCTCTGCTAATGCACCATTGCAAAAGGAGCTGGAAGCAGgtgaggttgataattatgttgtgttatatcaggctcttcgttgtctcaataatgcagggttgacaatcctcaatggaaagtacacttcacattttatacacgtcagacttgtttaatgctgtttgaaccttcctctttctctgttttcaagtctattctgacaatatcactatcgtgtgttgatgtacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG