Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaaaaagggtgtgaagggaaatggatgttgggttgcttatctgtgaagattgtacagaaggttgttccatacacacagctaattttagtatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG

Basic information

species Zea mays
transcript GRMZM2G059991_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g25850.1 (Oryza sativa), 3'ss of exon 4
ataaaaaagggtgtgaagggaaatggatgttgggttgcttatctgtgaagattgtaca-gaaggttgttccataca-cacagctaattt-tagtatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG
    |||  |  |          |  | |   |  | | | | | | |  ||  |||| |  | ||     |||   ||||||| | || | | |  |||||||| |||||||| || || || || | |||||||||  ||||||| |||||||||||||| ||||| ||||||||||||
---gaaattgtagccctactttctaaaggaaagaatacattttttttagcatcctacatggtgatttgataatagggcacagctgacttcttgcaatttgcagGACCCTCTGGTAACGAAGGGGGCCAACTTGGTTCCTTTGTTGGGAATTGATGTCTGGGAGCATGCGTACTACCTGCAG

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 3'ss of exon 4
ataaaaaagggtgtgaagggaaatggatgttgggttgcttatctgtgaagattgtacagaaggttgttccatacacacagctaatttta---------gtatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG
          || |   |  |  || || || || |       ||   | |||    |   | |  ||  ||    | |  |||| |||          | | |  |||||||| ||||| ||||||||  ||| |||||||||  || |||| || ||||| ||||| |||||||||||| | |||
---------tgtcttttgtaacttgtatctttgggtctaggaatgcagaaattaattattggttgattgaattattatatttaatattattttgaactatctgtcacagGATCCACTGGTAACTAAAGGACCAAACTTGGTTCCATTGCTGGGTATAGATGTTTGGGAGCATGCATACTACTTACAG

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 4
lower sequence: PP1S174_60V6.1 (Physcomitrella patens), 3'ss of exon 4
ataaaaaagggtgtgaagggaaatggatgttgggttgcttatctgtgaagattgtacagaaggttgttccatacacacagctaattttagtatcttgcagGATC-CTCTGG-TGACTAAAGGTGCAAG--CTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG
         ||  || ||    || | |  | | |||    ||| |  |  | |  | |   | |   |   |   |  | |||  | |  ||| |   | | | ||| || || ||    ||  |||  | | |||||  |  | || |||||||||||||||||||| |||||| |||||
---------ggcttgtagactcattgttccttg-ttgagattctttttaactggatctgttagcttcacatgattgatggataacatgaacatcgtttggaaccgctcagGATGCCTTGTCGTCAAAGGGCCTCGTTCCCTTACTTGGAATTGATGTCTGGGAACATGCCTACTACTTGCAG

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|148960461|gb|EE011056.2|EE011056
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTTTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|211509985|gb|FL212150.1|FL212150
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60342800|gb|DN209773.1|DN209773
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|4835039|gb|AI670265.1|AI670265
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|24765654|gb|CA400813.1|CA400813
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|149058839|gb|EE156860.2|EE156860
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60395736|gb|DN228606.1|DN228606
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|71429171|gb|DR810221.1|DR810221
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|21389905|gb|BQ527954.1|BQ527954
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|211507633|gb|FL212146.1|FL212146
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|5686828|gb|AI939742.1|AI939742
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|50337946|gb|CO533072.1|CO533072
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTTTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|22935765|gb|BU572040.1|BU572040
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|24764063|gb|CA399232.1|CA399232
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|76933824|gb|DV173600.1|DV173600
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60400370|gb|DN233177.1|DN233177
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|149085021|gb|EE174530.2|EE174530
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|24767245|gb|CA402389.1|CA402389
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|18660326|gb|BM500804.1|BM500804
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|29576842|gb|CB616954.1|CB616954
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60394126|gb|DN226996.1|DN226996
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|31358052|gb|CD442409.1|CD442409
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60346223|gb|DN213196.1|DN213196
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|16919543|gb|BM074241.1|BM074241
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60399935|gb|DN232742.1|DN232742
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|76013538|gb|DT940708.1|DT940708
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|78076311|gb|DV504745.1|DV504745
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|5058804|gb|AI737280.1|AI737280
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|166641462|gb|EG289427.1|EG289427
EST:     GGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGA
genomic: GGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAA-GGTGCAAGCTTGGTTCCGCTGTTGGGGATTGA
EST: gi|211509987|gb|FL212152.1|FL212152
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAAAAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|5124097|gb|AI745938.1|AI745938
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|76281803|gb|DV021371.1|DV021371
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTTTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|16925475|gb|BM078543.1|BM078543
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60401116|gb|DN233923.1|DN233923
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|76933825|gb|DV173601.1|DV173601
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|22542675|gb|BU093113.1|BU093113
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|4967171|gb|AI692081.1|AI692081
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|31361853|gb|CD446210.1|CD446210
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60400384|gb|DN233191.1|DN233191
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|24765551|gb|CA400710.1|CA400710
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|22818940|gb|BU499030.1|BU499030
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|149085100|gb|EE174607.2|EE174607
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|91871701|gb|EB401658.1|EB401658
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|85152185|gb|DW587647.1|DW587647
EST:     ACAGCT-ATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: ACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|78087633|gb|DV516026.1|DV516026
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTTTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|4966517|gb|AI691373.1|AI691373
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60399390|gb|DN232204.1|DN232204
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|31357365|gb|CD441722.1|CD441722
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|4837565|gb|AI670655.1|AI670655
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|4887485|gb|AI677584.1|AI677584
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|8665682|gb|BE186498.1|BE186498
EST:     CTTTGGATAAAGAGGCAAAAAAGCCTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60357925|gb|DN224898.1|DN224898
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|78026618|gb|DV495005.1|DV495005
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCGGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|67020859|gb|CO449608.1|CO449608
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|76013539|gb|DT940709.1|DT940709
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
EST: gi|60343978|gb|DN210951.1|DN210951
EST:     CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAG                         GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT
genomic: CTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGAT

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 540

TGGTTAGCTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 749

TGGTTAGCTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 609

TGGTTAGCTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 532

TGGTTAGCTTTGGATAAAGAGGCAAAAAAGCTTTCAGTTGAAACAACAGCTAATCAGgtgaaagatg ... tatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagattgtacagaaggttgttccatacacacagctaattttagtatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG
                                 agctaat  putative branch site (score: 532)
                                    taattttagtatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataaaaaagggtgtgaagggaaatggatgttgggttgcttatctgtgaagattgtacagaaggttgttccatacacacagctaattttagtatcttgcagGATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
-taaaaaa
- - - - - - - - - - - atggatg
- - - - - - - - - - - - - - - - ggttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaca