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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA

Basic information

species Physcomitrella patens
transcript PP1S29_222V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 1
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
  ||  |   || |||    |   |   | | |      |     |  | |      |  | ||    | |  || | | |||||   |||  ||    ||||||||| |||||||| || ||||| ||||||||||||||| | || || || |||||||| || || || ||||||||||| ||||| |||||||||||||
--gtaaggctccgatcgagacctatccattccagagcagtctcgatctcgtcacccatggatttcgagatt--tgatgcgcccttttttttggctc---gcagTTCGTGGCGGATGGGGTGTTCTTCGCGGAGCTGAACGAGATGCTGACGCGCGAGCTCGCGGAGGACGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCA

upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g38000.1 (Oryza sativa), 3'ss of exon 1
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
                       |    |||| |||             |   | | |||  ||     || || | |||        || |||     | |||||||    ||||| || ||||  ||||||||||||||| | || || |||||||| ||||| || || ||||||||||| ||||||||||| || || |
----------------------gtacggtgcagatccctcgcagggtttcgattcgattcgattcgattctcctcgatctgatggtttttgttc---atgtagTTCGTGAGCGATGGCGTGTTCTACGCGGAGCTGAACGAGATGCTGACGCGGGAGCTGGCCGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTGACGCCGA

upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 1
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
|| ||  |    |  | || |  | || |||    |  ||         |||  ||  ||| |    |   ||| | || |||    |||  ||     ||||||||| |||||||| || ||||| ||||||||||| ||| | || ||||| |||||||| || ||||| ||||||||||| ||||| |||||||||||||
gtatggctcgtac-ccgtctccgtcttttgcgtggcgcatgg----gttctgtatgtctca-tcatgcgtcgcttgctcacccg---cttggtc-----gcagTTCGTGGCGGATGGCGTGTTCTTCGCGGAGCTGAATGAGATGCTGACCCGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCA

upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G074300_T04 (Zea mays), 3'ss of exon 1
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
              |   ||  ||  ||   |||  |     ||| | ||  |||    | | |||     | ||| |||  | |    | || |  |   |||||||    || || || ||||  || ||||| || ||| | || || ||||||||||| || || || ||||||||||| |||||||||||||| || |
-------------gtacgcgagctcctcc-taaacgtagcgctaccagcc--cttctcccccctgc--gtcgatggatctgacctgtgctcttgtccg--tagTTCGTCAGCGACGGCGTGTTCTACGCCGAGCTCAATGAGATGCTGACGCGGGAGCTCGCGGAGGACGGCTACTCCGGCGTGGAGGTGCGCGTCACACCGA

upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 1
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
|| ||  | |    |  |     ||| ||     |       ||| |  | |   | |    ||| | |    | | |  |   |    |||||| | | ||||||||||| ||||||||||||||||| |||||||||||| | |||||| | ||||| ||||| ||||| ||||| || || |||||  | || || || |
gtctg-atcatatgttcttttattttcctttgttttctgagctaccaatcggaaagttatgtttgttaaagtttcggtaacttattttgttttctctta-cagTTCGTAGCTGATGGAGTTTTCTTTGCTGAGCTGAACGAGGTTCTCACCAGAGAGCTGGCCGAGGATGGCTACTCTGGTGTCGAGGTTAGGGTTACGCCAA

upper sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EDP07493 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtgtgtgtaacccatcatcgc-tcttttctgcaaatctgataatactaccc--tgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
||  |     |   | |     |     |||  |    |      |  |||  |||  ||     | ||| | |    ||  ||  || |    |        ||||||||   ||| || || ||||  || ||||||||||||||||| ||||| ||||| ||||| ||||| |||||||| || ||||| ||||| |||||||
gtaggccaggcttctgaatatgttgcggctgtgagcgcgggcggccggccccttgcgaggacaggtggctaagtctacgtattctattgctccatgtgccacacagTTCGTCCAGGACGGCGTGTTCTACGCCGAGCTGAACGAGCTCCTGACCCGCGAGCTGGCCGAGGATGGCTACTCCGGTGTGGAGGTCCGCGTGACCCCCA

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|100378962|gb|BY986505.1|BY986505
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67709528|gb|BJ965344.1|BJ965344
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGGTGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67717578|gb|BJ967837.1|BJ967837
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162276013|gb|FC452289.1|FC452289
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162238647|gb|FC418191.1|FC418191
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18342128|gb|BJ174163.1|BJ174163
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67726093|gb|BJ976352.1|BJ976352
EST:     TACAATGGCCACCCAAATGAGCCAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: TACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18356425|gb|BJ188484.1|BJ188484
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18326428|gb|BJ158427.1|BJ158427
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAAC
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAAC
EST: gi|18343666|gb|BJ175704.1|BJ175704
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162254376|gb|FC430511.1|FC430511
EST:     CCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: CCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18361069|gb|BJ193133.1|BJ193133
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162226892|gb|FC403080.1|FC403080
EST:     GGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18325130|gb|BJ157126.1|BJ157126
EST:     AATTCNACGCTACAATGGCCACCCAAATGAGCANGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: AATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162259569|gb|FC435496.1|FC435496
EST:     AAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: AAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|208363095|gb|DC958008.1|DC958008
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67726844|gb|BJ977103.1|BJ977103
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18330673|gb|BJ162679.1|BJ162679
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|208362665|gb|DC939533.1|DC939533
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162251398|gb|FC427689.1|FC427689
EST:     ACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: ACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18352298|gb|BJ184352.1|BJ184352
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18342319|gb|BJ174354.1|BJ174354
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18367767|gb|BJ199850.1|BJ199850
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18350622|gb|BJ182673.1|BJ182673
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|19790485|gb|BQ041896.1|BQ041896
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18372240|gb|BJ203842.1|BJ203842
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162222971|gb|FC399927.1|FC399927
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162259363|gb|FC436228.1|FC436228
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162217178|gb|FC392542.1|FC392542
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162247018|gb|FC422192.1|FC422192
EST:     ACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: ACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162259902|gb|FC436037.1|FC436037
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67719996|gb|BJ970255.1|BJ970255
EST:     NTCGCCAATTCGACGCTACAATGGCCACCCAAATGAACAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18351686|gb|BJ183738.1|BJ183738
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67718049|gb|BJ968308.1|BJ968308
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67726548|gb|BJ976807.1|BJ976807
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162274783|gb|FC450524.1|FC450524
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18329334|gb|BJ161340.1|BJ161340
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|100361910|gb|BY947688.1|BY947688
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67724505|gb|BJ974764.1|BJ974764
EST:     AAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAG-NNNNNNNGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: AAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|37833361|gb|BJ591373.1|BJ591373
EST:     GAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGNNNNNNNNGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18362632|gb|BJ194703.1|BJ194703
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162227667|gb|FC402335.1|FC402335
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162272710|gb|FC448336.1|FC448336
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67718357|gb|BJ968616.1|BJ968616
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67703704|gb|BJ963937.1|BJ963937
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67719120|gb|BJ969379.1|BJ969379
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162247019|gb|FC422193.1|FC422193
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|18332424|gb|BJ164437.1|BJ164437
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67704567|gb|BJ964800.1|BJ964800
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67727433|gb|BJ977692.1|BJ977692
EST:     CCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: CCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|19788536|gb|BQ040786.1|BQ040786
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|162206865|gb|FC382727.1|FC382727
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67712794|gb|BJ966243.1|BJ966243
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
EST: gi|67702186|gb|BJ962419.1|BJ962419
EST:     GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAG                         TTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG
genomic: GTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGG

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: 130

CACGCCTCTCAATCGCAGGCAGGCTCTTACTCGGTCGGTCGCCTTCTTCGGTCGCCAATTCGACGCTACAATGGCCACCCAAATGAGCAAGAAGCGAAAGgtgtgtgtaa ... ctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA
               tgctcac  putative branch site (score: 130)
             cttgctcactgctggt  CT-rich tract
                                        tttttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtgtaacccatcatcgctcttttctgcaaatctgataatactaccctgcttggttcacttgctcactgctggttctcccttccctttttctatgagcagTTCGTAGCGGATGGAGTTTTCTTTGCGGAGCTGAACGAGCTCCTCACCCGGGAGCTCGCCGAAGATGGGTACTCCGGCGTTGAGGTGCGCGTCACCCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG