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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttggcatttttctttttcttttgttttgtccctctctactctggactaattttttcccgtcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG

Basic information

species Glycine max
transcript GLYMA11G11510.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 3
-----------------------------------gtaagcttggcatttttctttttcttttgttttgtccctctctactctggactaattttttcccgtcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
                                    || | ||   ||   |   |  |     ||||||   |    |||||| ||   || |        ||||||||||||| |||||  ||| ||||||||| |||||||| ||||||||||| || || ||||| ||||
gtgtactgaaacagttctccaaaatccatttttgaataggattaatatagatggctcccaaactttttgtt--tgctgactctgaaccccttct--------attttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATTATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA11G11510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g02380.t01 (Vitis vinifera), 3'ss of exon 4
------------------------gtaagcttggcatttttctttttcttttgttttgtc-cctctctactctggact-------aatttttt------cccgt---cattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
                        |     ||  | |||||||   || |      ||||  ||   || | |||  |       |||| |||       | ||   ||| ||||||||||||||||||||||||||||||| || ||||||||||| |||||||| || ||||| ||||
gtaagtttggcttctactatgagagatttttttccttttttctccctcctgcaacatgtcgtctggttaatatggtttgctgataaattctttatgtgctctgtttccatattcagTGGATTCCTGAGTTGAGGCATTATGCACCCGGTGTTCCAATAATTCTTGTCGGGACAAAGCTTG
















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|7589435|gb|AW705209.1|AW705209
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298169211|gb|HO020571.1|HO020571
EST:     TTGCTTTCTCTCTTATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298197330|gb|HO044809.1|HO044809
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298171990|gb|HO021582.1|HO021582
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|16996922|gb|BM086294.1|BM086294
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|5760314|gb|AI965741.1|AI965741
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|151394170|gb|EV264041.1|EV264041
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|19346953|gb|BM891833.1|BM891833
EST:     TTGCTTTCTCTCTCATAAGCAGGGCTAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298177328|gb|HO027109.1|HO027109
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|193599687|gb|FK551538.1|FK551538
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|26058249|gb|CA801163.1|CA801163
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|5342846|gb|AI795130.1|AI795130
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGAGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|23725796|gb|BU760863.1|BU760863
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCT
EST: gi|298182534|gb|HO031269.1|HO031269
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGGGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|298178107|gb|HO027490.1|HO027490
EST:     GGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: GGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|4293505|gb|AI442057.1|AI442057
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329017|gb|FK021091.1|FK021091
EST:     TTGCTTTCTCTCTCATAAGCATGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCCGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192297529|gb|FG989535.1|FG989535
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|7589250|gb|AW705028.1|AW705028
EST:     TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT
EST: gi|192329018|gb|FK021092.1|FK021092
EST:     TTGCTTTCTCTCTCATAAGCATGGCCAGCTATGAAAATGTTGCCAAGAAA                         TGGATTCCTGAGTTGAGGCATTATGCTCCCGGTGTTCCAATTATTCTTGTT
genomic: TTGCTTTCTCTCTCATAAGCAGGGCCAGCTATGAAAATGTTGCCAAGAAAgtaagcttgg ... tcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttttgttttgtccctctctactctggactaattttttcccgtcattttcagTGGATTCCTGAGTTGAGGCATTATGCTCCTGGTGTTCCAATTATTCTTGTTGGAACAAAACTTG
                             gactaat  putative branch site (score: 2)
                                   ttttttcccgtcattt  CT-rich tract
                              actaatttttt  TA-rich tract