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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTTGGGGCACTTCCTCTTGGCTAATATGCTGATGGAAGATATTCAGCATAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgctgcatatgtttctggagatcatagaatcacttcaactttgccatccctaaccaatgtcaaccctcgatgtggacgattgagcaaaaaatc...

Basic information

species Physcomitrella patens
transcript PP1S108_171V6.1
intron # 3
splice site 5'
intron type U2

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|100400296|gb|BY954406.1|BY954406
EST:     TAA-GAAAATGATACCAATCGGAGGGTCATCATTGTGGGGTCGATTACGG                         GAAACACGAACAC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACAC
EST: gi|100362358|gb|BY947319.1|BY947319
EST:     TAAAGAAAATGATACCNATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GNAACACGAACACAATAGCAGGAAACGTGCCGCCGAAAGGCTAAC-TTGGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAA-GGCTAACCTTGGC
EST: gi|162194332|gb|FC368515.1|FC368515
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|208397411|gb|DC908273.1|DC908273
EST:     TAAAGAAAATGATACCAATCGGANGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAAC-TTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|162195447|gb|FC369330.1|FC369330
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAAGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|208366975|gb|DC951462.1|DC951462
EST:     TAAAGAAAATGATACCCATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|162226798|gb|FC402804.1|FC402804
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100405161|gb|BY955393.1|BY955393
EST:     TNAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGGTCGATTACAG                         GGAACACGAACACAATAGCAGGAAACGTGCCGGCGAAG-CTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100364905|gb|BY947967.1|BY947967
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGGTCGATTACAG                         GAAACACGAACACAATAGCAGGAAAACGTGC-GCCGAAGGCTAACCTTGGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAA-CGTGCCGCCGAAGGCTAACCTTGGC
EST: gi|100385885|gb|BY951079.1|BY951079
EST:     TAAAGAAA-TGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACNG                         GGAACACGAACACNATAGCAGGAAACGTGCCGCCGA-GGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|162268440|gb|FC444313.1|FC444313
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GANACACGAACACAATAGCAGGAAACGTGCCGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGC
EST: gi|100362882|gb|BY947576.1|BY947576
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GNAACACGAAACACA-TAGCAGGGAACGTGCCGCCGAAGGCTAACCTTGGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAA-CACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGC
EST: gi|100391095|gb|BY953105.1|BY953105
EST:     AA-GAAAATGATACCAATCGGAGGGTCATCATTGGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGGAACGTGCCGCCGA
genomic: AAAGAAAATGATACCAATCGGAGGGTCATCATTG-TGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGA
EST: gi|100362916|gb|BY947593.1|BY947593
EST:     AAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACNAG                         -AAACACGAAACACA-TAGCAGGAAACGTGCCCGC-GAAAGCTAACCTTG
genomic: AAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTAC-AGgtaaattcgc ... tacgtctcagGAAACACGAA-CACAATAGCAGGAAACGTGCC-GCCGAAGGCTAACCTTG
EST: gi|162198148|gb|FC372565.1|FC372565
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100414451|gb|BY992781.1|BY992781
EST:     AAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTTCGAT-ACGG                         GAAACACGAACACAATAGC
genomic: AAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTT-CGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGC
EST: gi|162249935|gb|FC427036.1|FC427036
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100417996|gb|BY993286.1|BY993286
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACNG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|208377340|gb|DC906623.1|DC906623
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCNATTACAG                         GAAACACNAACACAATANCAGGAAACGTGCCGCCNAAG-CTAAC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAAC
EST: gi|162168831|gb|FC345029.1|FC345029
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|208350263|gb|DC901619.1|DC901619
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100402628|gb|BY954930.1|BY954930
EST:     TAAAGAAAATGATACCCATCGGAAGGTCATCATTGTGGGGTCGATTACNG                         GAAACACGNACACAATAGCAGGAA
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAA
EST: gi|100397784|gb|BY990399.1|BY990399
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100389050|gb|BY952254.1|BY952254
EST:     TAAAGAAAATGATACCCATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGGAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|162161210|gb|FC337273.1|FC337273
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100401185|gb|BY990873.1|BY990873
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACGG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAAGGCTA-CCTTGGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAA-GGCTAACCTTGGC
EST: gi|162239406|gb|FC416792.1|FC416792
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGC
EST: gi|100402338|gb|BY954786.1|BY954786
EST:     TAAAGAAAATGATACAAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GGAAACACGAACACAATAGCAGGAAA
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagG-AAACACGAACACAATAGCAGGAAA
EST: gi|100448131|gb|CJ972430.1|CJ972430
EST:     TAAAGAAAATGATACCAATCGGANGGTCATCATTGTGGGTNCGATTAC-G                         GNAAACACGAACAC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagG-AAACACGAACAC
EST: gi|100398684|gb|BY990464.1|BY990464
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACGG                         GAAACACGAACAC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACAC
EST: gi|162167962|gb|FC344900.1|FC344900
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|162243479|gb|FC425175.1|FC425175
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100389487|gb|BY988965.1|BY988965
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGC
EST: gi|162254718|gb|FC431007.1|FC431007
EST:     TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTTGGCG
EST: gi|100358946|gb|BY946768.1|BY946768
EST:     TAAAGAAAATGATACCCATCGGAGGGTCATCATTGTGGGTTCGATTACAG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACC
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACC
EST: gi|100397055|gb|BY953962.1|BY953962
EST:     TAAAGAAAATGATACCNATCGGAGGGTCATCATTGTGGGTTCGATTACNG                         GAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAAGCTAACCTT
genomic: TAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgc ... tacgtctcagGAAACACGAACACAATAGCAGGAAACGTGCCGCCGAAGGCTAACCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATTTGGGGCACTTCCTCTTGGCTAATATGCTGATGGAAGATATTCAGCATAAAGAAAATGATACCAATCGGAGGGTCATCATTGTGGGTTCGATTACAGgtaaattcgctgcatatgtttctggagatcatagaatcacttcaactttgccatccctaaccaatgtcaaccctcgatgtggacgattgagcaaaaaatc

- - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA