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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ttagtgtgcatctgctgttatgtgttttctccagactgtagtaactgttgtgctactatttacatgtccctttgactattttcaagagttgattgtgtaacttttgctcactttctgaaaatacacttatacattggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAATA

Basic information

species Glycine max
transcript GLYMA18G35390.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G35390.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g30800.1 (Oryza sativa), 3'ss of exon 2
----------------------ttagtgtgcatctgctgttatgtgttttctccagactgtagtaactgttgtgctactatttacatgtccctttgactattttcaagagttgattgtgtaacttttgctca--ctttctgaaaatacacttatacattggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAATA
                      | |   || |     | | |  |         |   | |   | || ||  |     ||| | || | ||  |   || ||| |    ||  || | ||| || ||  ||  |||| |     |    |||| |     ||||||||||||||| |||||| | ||| |||| |||||||| || ||||||||||| |||||  ||||| | ||  | ||  |||| ||||| || || |||| 
gtacttcatcaaatcaacttcttgaagttgtagaaaatataagcttccaatgataatttatctcagcttttaggtctgaattgatatattcccct--ttagtttta----ttacttctataagttatgaccaaacttttttggggt----ttatccg--aattagGTGATGTGGACGTTTTCCATTTATCTGGAGGCTGTTGCAATTCTTCCTCAACTTGTACTACTACAGCGTACACGGAACGTTGATAATTTAACAGGGCAAT-

upper sequence: GLYMA18G35390.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0029g00180.t01 (Vitis vinifera), 3'ss of exon 2
ttagtgtgcatctgctgttatgtgttttctccagactgtagtaactgttgtgctactatttacatgtccctttgactattttcaagagt-tgattgtgtaacttttgctcactttctgaaaatacacttataca------ttggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAATA
                                          | |   | | || || |||      |      | |||||   || || | ||| | | | ||||  | |  ||  | ||||||    || ||      |||   ||||  ||||| |||||||| | || |||||||||||||| |||||||||||||| ||  | || || || ||||||||||||||||| ||||| ||||||| 
------------------------------------------atcgaatattctccttttttggaaac-----aaatatttatcagtgtctcatttttttattttt-tttatctttcgtaaatacttccatccaatatatttgagcagGTATTGTGGGCATTTTCCTTATACTTGGAAGCTGTTGCCATACTTCCTCAACTGGTTTTATTGCAAAGGACTAGAAATATTGACAACTTGACAGGACAAT-
















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|208292242|gb|GE093392.1|GE093392
EST:     AAATTCACATTTAAGGAGG                         TGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
genomic: AAATTCACATTTAAGGAGGttagtgtgca ... attggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
EST: gi|192319316|gb|FK009858.1|FK009858
EST:     CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGG                         TGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
genomic: CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGGttagtgtgca ... attggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
EST: gi|207837745|gb|GD810289.1|GD810289
EST:     CCCTATTAATCAACGAGAAATTCACATTTAAGGAGG                         TGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
genomic: CCCTATTAATCAACGAGAAATTCACATTTAAGGAGGttagtgtgca ... attggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
EST: gi|22929555|gb|BU546694.1|BU546694
EST:     CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGG                         TGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
genomic: CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGGttagtgtgca ... attggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
EST: gi|208098571|gb|GD894390.1|GD894390
EST:     CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGG                         TGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC
genomic: CTGCTTACTATTGGCCCTATTAATCAACGAGAAATTCACATTTAAGGAGGttagtgtgca ... attggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgattgtgtaacttttgctcactttctgaaaatacacttatacattggttaggTGATGTGGACATTTTCCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAATA
                 tgctcac  putative branch site (score: 2)
                              aaaatacacttata  TA-rich tract