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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgacatctactttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT

Basic information

species Zea mays
transcript GRMZM2G046743_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G22590.1 (Glycine max), 3'ss of exon 4
----------gtac-gcgacatctactttcttcattaattactatttacagttcctgcaaaaacta----aat-----cttttcg---------atgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT
          |||| | |  ||    ||| || | || | | | || |     |  || |||||||    |||     ||||| |         ||| |||| || || |||||||||||||||||||| || |||||| |||| |||||  ||   |||   ||  |    |  || ||| |  |    || |  |  |
taatgttctcgtactgtgtaataatttttttttactagtcaatgttaaagtaactagctaaaactatcaaaattgctgctttttgtgactgttgatgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACGGTGATGGTCAAGAAATTGAATTTCGAACCAAGCAGAATGCTTCGTTTTGTTGTACGTAATGTAT

upper sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G24520.1 (Glycine max), 3'ss of exon 3
-------------------------gtacgcgacat-ctactttcttcattaatt--actatttacagttc-ctgcaaaaactaaatctttt--cgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT
                          |     || | ||| |||   ||||  ||  |  |  || ||| | ||  |  ||||   | ||||   |||| |||| || || |||||||||||||||||||| || || ||| ||||||||||| ||  ||||   ||  ||   ||||| ||| ||||    || | ||  |
gtgaaattcagtttctcttactcttatctaaaaccttctaattttaacattggttcaaaaaactaaagtgctctagagtaactcttttttttgttgatgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAGTTGAACTTCAAACCTAGTAGTACACTTCGTTTCATTGTACGCAACGTGT

upper sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G06750.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------gtacgcgacatctactttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgat----------gcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT
                                               |       ||||  | ||  |  ||  || | |   ||||        || | ||| ||||||   |          | |||| || || |||||||||||||||||||| || || ||| ||||||||||  ||  |||    ||  || ||||||| ||| | ||    || |     |
gtgaaattcagtttctcttactcttgtccattatccaaaacccttttgattttagcatcaccctttctttttggtt-caaaaaacagaagtcatcaagagtaactcttttttttttttttttttgtagATTTATGCAATGCCAGTGTTTGACATGATTGAAACTGTGATGGTGAAGAAATTGAACTTTAAACCTAGTATGACACTTCGTTTTATTGTACGCAATCTGT

upper sequence: GRMZM2G046743_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0010g02700.t01 (Vitis vinifera), 3'ss of exon 3
---gtacgcgacatctactttcttcatta-attactattt-acagttcctgcaaaaactaa-atcttttcga----tgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT
   | |  ||| ||||  |        ||  ||  ||||| |  |   || ||    || | |  ||| ||     |||||||||| || |||||||||||||||||| | |||||  || |||||||||| |||   |||   ||   | | |  || ||||| ||  | || |||   |
gttgaaatcgaaatcttttccaaatgatatgtttttatttcattgaatcttcatttcctcataagtttgcgggaactgcagATCTATGCGATGCCAGTGTTTGACATGTTGGAGACATTGTTGGTGAAGAATCTGAAATTCAGACCATCTTTCATGCTTCGTCTTATTACCCGCACCCTAT

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|148931492|gb|EC874511.2|EC874511
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACAT
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACAT
EST: gi|78092654|gb|DV521028.1|DV521028
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|71761350|gb|DR959287.1|DR959287
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|149000252|gb|EE037405.2|EE037405
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|71446658|gb|DR827708.1|DR827708
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|37385478|gb|CF629883.1|CF629883
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCATGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGATATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|50336113|gb|CO531239.1|CO531239
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|40334334|gb|CK368404.1|CK368404
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCATGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAGCTGCGCTTCCCTCCCGGTCTGACACTGCGTCTCATCTCTCGGACCGCCT
                                  aactaaa  putative branch site (score: 2)
                                         tcttttc  CT-rich tract
      attaattactatttac  TA-rich tract