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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcatttcccttgtttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT

Basic information

species Glycine max
transcript GLYMA04G09180.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 4
gtcatttcccttgtttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
                           ||||| | ||  |||| | |  ||  || |  || || |    ||  || | |  ||    || |  ||  |  || || | ||| |||||| |  ||| |||||||||| || ||||||||||||||||| ||||| ||||| |||||||| || ||||||||||| ||||||||||| |||||  | |
--------------------------gtatataacattgtattcata--tactaacacaaataagttggaaaaaaactattctttttttctc--acttcatattat-tcctggtcagGTGTTTTTTGAATCGGATGAGGTCCATGCATGCATTGTCACATGTGGAGGACTGTGCCCTGGACTGAACACTGTCATTAGGGAAATTGTATGTGGCTTAT

upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g44922.2 (Oryza sativa), 3'ss of exon 4
gtcatttcccttgtttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcacc--aacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
                             ||| ||||  |         |   | |||| |||      | || | ||  |  |   || ||   ||||  |   | |   |  || |||| || ||| | || ||||||||| | ||||||||||| || ||||| || || |||||||| || ||||||||||| || ||  | ||||||||| |  
----------------------------gtatgatatgctgccccctcttttaactattgaaac-----tcatcacttgcgcgtgggctaacagaaacatttggacttgaacc-tttagGTTTATTTTGAGTCAGATGAAGTGAAAGCATGCATTGTAACTTGTGGAGGCCTTTGCCCTGGTCTTAACACTGTCATCAGAGAGCTCGTCTGTGGTTTGG

upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G443985_T04 (Zea mays), 3'ss of exon 4
-------------gtcatttcccttgt-ttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaat-catatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
              | ||||  |   | ||||  |   ||| | |   || |  || | |     |  ||| ||  ||| || ||      |||  ||| | ||  |   ||||  | | | |  |||| ||||||| ||| || ||||||| || || |||||||||||||| ||||| ||| | |||||||| || || ||||| || ||||||||||| |||||  | |
gtatatgaaccttatgatttttcgcatattgtacgctaataaaaaagctagaa-ataagggggagatgatactactaaacgtgtat---gctttacttc-attcttcgtaacctcgtgcttgtcttgtttagGTATATTTTGAACCGGATGAGGTCCACGCATGCATTGTCACTTGTGGAGGATTGTGCCCTGGACTTAATACTGTGATTAGGGAAATTGTATGTGGCTTAT

upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 4
---------------------------------gtcatttcccttgtttgtctgtgcatat-atattatatattattaagaac----taagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
                                 |  | |  |   | | |    |       | |  ||||| ||| |  |||    ||||  | ||  ||||    |  | | |||  ||    ||    |||  ||  |  | |  || | ||||||| ||| || ||||||| || ||||||||||||||||| ||||| ||| | ||||| || || || ||||| || ||||||||||| |||||  | |
gtatacaaaccttgtgcttttcacattctctacgctaatagcaaagctaggagataagggggagacaatataatatcactaaccttgtaagtttctttcaaaa-accttgtaagtttctttcgttctttgtaacctctggttgtct--tggttagGTATATTTTGAACCGGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGATTGTGCCCGGGACTTAATACTGTGATTAGGGAAATTGTATGTGGATTAT

upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G816636_T01 (Zea mays), 3'ss of exon 3
gtcatttcccttgtttgtctgtgcatatatattata-tattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
                |     |   | | | |||| ||| | |||      |   |  |   |||    |  | | |||  ||    ||    |||  ||  |  | |  || | ||||||| ||| || ||||||| || ||||||||||||||||| ||||| ||| | ||||| || || || ||||| || ||||||||||| |||||  | |
----------------gataagggggagacaatataatatcactaaccttgtaagtttctttcaaaaaccttgtaagtttctttcgttctttgtaacctctggttgtct--tggttagGTATATTTTGAACCGGATGAGGTCCATGCATGCATTGTCACTTGTGGAGGATTGTGCCCGGGACTTAATACTGTGATTAGGGAAATTGTATGTGGATTAT

upper sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
gtcatttcccttgtttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
                    || | | |   |  | | |      | |    ||||  | |    ||||| ||  || ||      |||    |||   ||||     | || |||||| || ||| | || ||||||||||| ||||| ||||| || |||||||| || |||||||| |||||||| ||||| ||||||||||| ||||| ||||
--------------------gtacgtcttcttcttttctcgcagtgcaagtggaatgatga----tgtatcatgcatatt-----tactatgtaacttttaat-----ggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT

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|209713661|gb|BW679373.1|BW679373
EST:     AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAG                         GTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGA
genomic: AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAGgtcatttccc ... tgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGA
EST: gi|209726796|gb|BW654874.1|BW654874
EST:     AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAG                         GTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCA
genomic: AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAGgtcatttccc ... tgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCA
EST: gi|213590226|gb|DB963817.1|DB963817
EST:     AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAG                         GTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGA
genomic: AGGATAGTCCAAGAGGTATACATTTTCGACGTGCAGGGCCTCGGCAAAAGgtcatttccc ... tgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT
     tataattaattttgtt  TA-rich tract