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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggagaggagaggcttacattgcaagcttttgttcgtttggggctatgttggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC

Basic information

species Physcomitrella patens
transcript PP1S68_116V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g51080.1 (Oryza sativa), 3'ss of exon 1
tggagaggagaggcttacattgcaagcttttgt-tcgtttggggctatgttggatacatttggcggtattgtgctaactatcactgttcttttcaa-------tccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
            ||   ||  ||  || | ||| |||   |    |      |||  ||| || | |    ||  |  | | | | |   |            | |||||||   || || |||| | | |  |||||||| || |||||||||||||||| ||||||||| ||| |||| |||||||| ||  ||||  | ||||| 
------------gcacgcac-gctcgcctctgtctcgagcgccattggcgccgatcgattcggtgattgattgggagttttaattttggatccgggcggggcttgcagGTTCCGGATGCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTGATGCTGGACGGCAACCCGCGGCTGAACCTCGCGTCG

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g13300.1 (Oryza sativa), 3'ss of exon 1
-----tggagaggagaggcttacattgcaagctt-ttgttcgtttggggctatgttggatacatttggcggtattgtg-ctaact----atcactgttcttttcaatc---cagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
     ||     ||   |||  |  |     |||  |||||  ||||  | |||  |      ||      | |  || || |||       | || ||  ||         |||| |   || || |||    | |  || ||||| || |||||||||||||||| ||||||||| ||| |||| |||||||| ||  ||||  ||||||| 
gtacgtgctctcgatctgctctctctctgttcttgctgttc--ttggcccaatgcagagcttcttccaatatttcatggctgactcgatgggattgatcgattggtgttattagGTACCGGATGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTGATGCTGGACGGCAACCCGCGGCTGAACCTGGCGTCG

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G017110_T01 (Zea mays), 3'ss of exon 1
tggagaggagaggcttacattgcaagcttttgttcgtttggggctatgttggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
              | || |  | | |     | ||   |  ||   | | |   | | || ||||     ||| |   |  ||| ||    |    ||||| |   || || |||||| | |  ||   ||| || ||| | |||||||||||||||||||||||| |||| |||||||| ||| ||||  ||||||||
-------------gtgacgtgacgaccacagatccggcggccgc-gcgctag---cctctgtcggt-----gctcatcct-gctgctcgccgcg-cgcagGTACCGGATGCCGGAGCGGTCGATCCCGCGGGAGGCGGCGCAGCAGATCATCAGCGACGAGCTCATGCTGGACGGCAACCCGCGCCTGAACCTGGCGTCC

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G017110_T03 (Zea mays), 3'ss of exon 1
tggagaggagaggcttacat-tgcaagcttttgttcgtttggggctatgttggatacatttggcggtattgtgctaa---ctatcactgttcttttcaatcc-----------agGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
               ||| |  || |||   ||      ||  |  | |    | | ||  |||||    | ||||    || ||  || || |     | |           |||| |   || || |||||| | |  ||   ||| || ||| | |||||||||||||||||||||||| |||| |||||||| ||| ||||  ||||||||
--------------ctacgtgcgcgagcgcctgccgcggtgacgtgacgacc-acagatccggcggccgcgcgctagcctctgtcggtgctcatcctgctgctcgccgcgcgcagGTACCGGATGCCGGAGCGGTCGATCCCGCGGGAGGCGGCGCAGCAGATCATCAGCGACGAGCTCATGCTGGACGGCAACCCGCGCCTGAACCTGGCGTCC

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G098875_T02 (Zea mays), 3'ss of exon 1
--tggagaggagaggct--tacattgcaagcttttgttcgtttggggctatgttggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
  ||    |||  |||   |  ||    ||||  |  | | |  ||  |         ||||   |   | | || |   |   | | |  |    |    ||||| |  ||| || |||    | |  |||||||| || |||||||||||||||| ||||||||||||| | || || ||||| ||| | ||  ||||||||
tgtgtgctggaacggccggtttatctgcagctgctagtggctatggctttgagcactgacatactgacttttggtccgtgcccgcgc-gcccgcgccg---cagGTACCGCATGCCGGAGAACTCCATCCCCAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTCATGCTCGACGGGAACCCGCGCCTCAACCTGGCGTCC

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G101069_T01 (Zea mays), 3'ss of exon 1
---tggagaggagaggcttacattgcaagcttttgttcgtttggggctatgttgga-tac-atttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
    | ||| |    ||   |     ||  | |     |   ||| || ||  ||| | | |   | ||  |        | | |   ||       |   |||||||||  || || |||| | | |  |||||||| || |||||||||||||||| ||||||||| ||| |||| || ||||| ||  ||||  ||||||| 
gtacgtagacgtcccgccagctgatgaatgtatccggggccggggactgtgggggagtgcgacgcgacgacagctgatcgattgttgttgacgcacccgg-ccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTGATGCTGGACGGGAACCCGCGGCTGAACCTGGCGTCG

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM5G826838_T01 (Zea mays), 3'ss of exon 1
-----tggagaggagaggcttacattgcaagcttttgttcgtttggggcta---tgttggatacatttggcggt-------attgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
     |           || | |  | |  ||| |   ||| | | | | |     ||   |||     |||||        ||| |||| |   | |||  |         ||||| |   || || |||| | | |  |||||||| || |||||||||||||||| ||||||||| ||| |||| || ||||| ||  ||||  ||||||||
gcacgtccttcctccctgccttccctccgcgctgtc--tcgctcgagccgagagcattatttacgcgccgcggttttcttcgttgggctacccgccgctgaccgcccgcccgcagGTACCGGATGCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTGATGCTGGACGGGAACCCGCGGCTGAACCTGGCGTCC

upper sequence: PP1S68_116V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ36644 (Selaginella moellendorffii), 3'ss of exon 1
------------------------------------tggagaggagaggcttacattgcaagcttttgttcgtttggggctatgtt---ggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
                                     | |       | ||  |   |   |  | ||  | |   | | |   |    ||||   | |  ||  ||   |      |   || ||| ||||  || |||| |  ||||||||| |  |  || |||||||||||||| || |||||||||   |||||||||||| ||||||| || |||||  | ||| | || |||
gtaagaagaaaaccatcccgagttctcgaccaaaatcgcattttttcgcctcgccacgagtggatctggccctgccgagatccatcctgggatttgtctctcgagatgtcgaggctcacttcttttcatttc--tctagGTACCGCATTCCCGACCAAGAGACGCCCAAGGATGCCGCCTATCAGATCATCTCGGACGAGCTCATGCTGGATGGAAATCCTCGTCTCAATCTCGCCTCC

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|67701811|gb|BJ962044.1|BJ962044
EST:     ACCGTTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|162186448|gb|FC363004.1|FC363004
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100431291|gb|BY960123.1|BY960123
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|18329964|gb|BJ161970.1|BJ161970
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|67508354|gb|BJ941222.1|BJ941222
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100372456|gb|BY985608.1|BY985608
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|18356538|gb|BJ188597.1|BJ188597
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100443357|gb|BY963653.1|BY963653
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100421503|gb|BY976211.1|BY976211
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|18354192|gb|BJ186248.1|BJ186248
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100431121|gb|BY960037.1|BY960037
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100404166|gb|BY955288.1|BY955288
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100431765|gb|BY978495.1|BY978495
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100389016|gb|BY952220.1|BY952220
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|18357446|gb|BJ189505.1|BJ189505
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100397278|gb|BY972419.1|BY972419
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100358153|gb|BY965499.1|BY965499
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|67718142|gb|BJ968401.1|BJ968401
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|18343502|gb|BJ175540.1|BJ175540
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100379799|gb|BY949950.1|BY949950
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100412451|gb|BY974740.1|BY974740
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|208398118|gb|DC908347.1|DC908347
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100433540|gb|BY960587.1|BY960587
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100422649|gb|BY976479.1|BY976479
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100382858|gb|BY986944.1|BY986944
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100440223|gb|BY962125.1|BY962125
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100389596|gb|BY952402.1|BY952402
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|208377786|gb|DC940898.1|DC940898
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100414435|gb|BY992773.1|BY992773
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100436799|gb|BY979531.1|BY979531
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|100352095|gb|BY983033.1|BY983033
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
EST: gi|67572688|gb|BJ945512.1|BJ945512
EST:     ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAA                         GTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT
genomic: ACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCAT

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: 32 (upstream exon), 34 (downstream exon)
Score: 42

AGATGGCGCTCACTACGTGCAAGAGCATGAAGGAGACGCGGGGTCACAACACCATTGACTCCATGTTTGCTTCCAGATATGTCCAGTGCGAGCTTCCCAAgtgagtttgc ... ttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC
                         tgctaac  putative branch site (score: 42)
                                  tcactgttcttttc  putative PPT
       atacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggagaggagaggcttacattgcaagcttttgttcgtttggggctatgttggatacatttggcggtattgtgctaactatcactgttcttttcaatccagGTTCACCATTCCCGAGCGGGCAACACCCAAGGATGCCGCGTACCAGATCATCAGCGACGAGCTCATGTTGGATGGCAACCCTCGCTTGAATTTGGCGTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA