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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatttccaagaacacttgaatctatccttgttttccagttatttctatgctcactgtcacctgcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACTTACTGCTGGTACAATATGGTG

Basic information

species Zea mays
transcript GRMZM2G154165_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 3
--------------------------------gtaacatttccaagaaca-cttgaatctatccttgttttccagttatttctatgctcac--tgtcacct----gcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACTTACTGCTGGTACAATATGGTG
                                 |    ||| |  |   |  || ||    |  |||||      || |   |||  |  |  ||| ||||      ||  |||||||| || || ||||| |||||||| ||||||||||||||||||||  | || || || ||  |||||||
gtaagttgatggtgtttatattgaaatagtttttcctctttacttgcgtagtttaaacaggttgttgttaaatgtttctggatataatgtccgtgttacctttccatttcaagGTATCCCCTCGGTCGTGTAATTGGTGGGACTGTCTATCCTGGTTTGACGTTGACAGCAGGCACCTTATGGTG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 3
----------------------gtaaca--tttccaagaacacttg---aatctatccttgtt-ttccagttatttct----atgctcactgtcacct----gcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACTTACTGCTGGTACAATATGGTG
                      | ||||  ||| |    | |||||   | | ||  |  ||| ||     | |||||    ||  |  |||| ||||      ||  |||||||| ||||| ||||| |||||||| ||||||||||||||||||||  | || || || ||  ||||| |
gtaagttgatggtgtttatattgaaacactttttcctctatacttgcatagtttaaacaggttgttgttaatgtttctggatataatgtctgttacctttccatttcaagGTATCCCCTTGGTCGTGTAATTGGTGGGACTGTCTATCCTGGTTTGACCTTGACAGCAGGCACCTTATGGCG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 3
----------------------gtaacatttccaagaacac--ttgaatctatccttgttttcc---agttatttct-atgctcactgtc--acctgcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACTTACTGCTGGTACAATATGGTG
                      |  |  ||     || ||   |||     |   |   |||||   |||| ||  | |   |  ||||   || | | || |||||||||||||| ||||| |||||||||||||| || || || |||||  | || || ||  | ||||||||
gtaatcattattaaaactgtccgatatgttctggtgaccatgtttgtgctcacgttatctttccttaagttgttaatgacagtatctgttctacttccattaagGTATCCTCTTGGTCGTGTGATTGGTGGCACTGTTTACCCAGGATTGACCTTAACAGCAGGCTCCATATGGTG

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|71446808|gb|DR827858.1|DR827858
EST:     TCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG                         GTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACT
genomic: TCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATGgtaacatttc ... ctgcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACT
EST: gi|71447977|gb|DR829027.1|DR829027
EST:     TCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATG                         GAATCCTCTTGGGCGTGTTATTGGAGGGACTGTCTATCCTGGTTTGACACT
genomic: TCAAAGAATGGCATATATGAATTCTGGAACTGGTTTGATGACCGAACATGgtaacatttc ... ctgcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaatctatccttgttttccagttatttctatgctcactgtcacctgcttttagGTATCCTCTTGGGCGTGTTATTGGTGGCACTGTCTATCCTGGTTTGACACTTACTGCTGGTACAATATGGTG
                                tgctcac  putative branch site (score: 2)
                                            cctgctttt  putative PPT
                       ttatttctat  TA-rich tract