Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctattacactgcattgttggaacatgtttgggtgatgattaaggcgtccgtgagttctgttgcggtgtgtgatgtaatcgtatcccaatggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACGGGGGGCCGAGAGTGTTGAGGGTGTCGAAGTGACTTTGTATCAA

Basic information

species Physcomitrella patens
transcript PP1S55_98V6.1
intron # 1
splice site 3'
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|162273424|gb|FC449873.1|FC449873
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18363483|gb|BJ195555.1|BJ195555
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162207201|gb|FC382523.1|FC382523
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208351221|gb|DC918108.1|DC918108
EST:     TACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGCACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACNTGCGAAAGAAATCAAACG
genomic: TACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18373048|gb|BJ204650.1|BJ204650
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162268184|gb|FC443862.1|FC443862
EST:     ACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: ACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18351433|gb|BJ183485.1|BJ183485
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18368990|gb|BJ201075.1|BJ201075
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208392322|gb|DC904210.1|DC904210
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGCACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208366835|gb|DC940149.1|DC940149
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67577811|gb|BJ949978.1|BJ949978
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18375377|gb|BJ206955.1|BJ206955
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162220927|gb|FC396112.1|FC396112
EST:     CTACATCCCTCAAGCCAGCCACCACCCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208393551|gb|DC949713.1|DC949713
EST:     CTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18352919|gb|BJ184974.1|BJ184974
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162233470|gb|FC410241.1|FC410241
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208367048|gb|DC935904.1|DC935904
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67507439|gb|BJ940322.1|BJ940322
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162278474|gb|FC454560.1|FC454560
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162190130|gb|FC365872.1|FC365872
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162267309|gb|FC442097.1|FC442097
EST:     GCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: GCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18362850|gb|BJ194922.1|BJ194922
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162150981|gb|FC327877.1|FC327877
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162204899|gb|FC381516.1|FC381516
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18345641|gb|BJ177684.1|BJ177684
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208349973|gb|DC913681.1|DC913681
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162233469|gb|FC410240.1|FC410240
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|18345474|gb|BJ177517.1|BJ177517
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162267310|gb|FC442098.1|FC442098
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67507544|gb|BJ940426.1|BJ940426
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162207200|gb|FC382522.1|FC382522
EST:     CATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|208380161|gb|DC927440.1|DC927440
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67568848|gb|BJ941672.1|BJ941672
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162241017|gb|FC416648.1|FC416648
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162220928|gb|FC396113.1|FC396113
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67576847|gb|BJ949671.1|BJ949671
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162273423|gb|FC449872.1|FC449872
EST:     CCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67570194|gb|BJ943018.1|BJ943018
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162268185|gb|FC443863.1|FC443863
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67578176|gb|BJ950343.1|BJ950343
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|67575920|gb|BJ948744.1|BJ948744
EST:     CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
EST: gi|162278473|gb|FC454559.1|FC454559
EST:     CCATGGCCACCAAGGTGTACATTGT                         GTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG
genomic: CCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACG

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: 29 (upstream exon), 34 (downstream exon)
Score: 31

TGCAGCTCGATTGTCTCCCATTGACGCGGAGCGCATTCATTTTCTGTTTGCTACATTCCTCAAGCCAGCCACCAACCATGGCCACCAAGGTGTACATTGTgtaagttgct ... ggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACGGGGGGCCGAGAGTGTTGAGGGTGTCGAAGTGACTTTGTATCAA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtccgtgagttctgttgcggtgtgtgatgtaatcgtatcccaatggtgccgcagGTACTATTCCATGTATGGTCACATCGAAACACTTGCGAAAGAAATCAAACGGGGGGCCGAGAGTGTTGAGGGTGTCGAAGTGACTTTGTATCAA
                           atgtaat  TA-rich tract