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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG

Basic information

species Zea mays
transcript GRMZM2G137528_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 3
gtttgttttgaactaaaatgcagtatcaccaaa----atat-gcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
|||||| |  || |  |||| | |||      |    |||| ||||||||||| |  ||||| ||||||| |||||||||| ||||| ||||||||||| || ||||||||||| |||||||||||||||||||||
gtttgtatataatttcaatgtactattgatgcatcgcatatagcacattctgactcatgaactcaacttttagGTCATTGAACTTCCTATCAAACATCCAGAGCTATTTGAGAGTCTTGGAATTGCCCAACCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------------------------------------------------gtttgttttgaactaaaatgcagtatcaccaaaatatgcacatt--------ctgatttgtg-aacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
                                                                                                                        || | ||||    ||  ||   | || || |||||  |   | |        || || | ||  |   ||  | |||||||||||| | |||||||||||||| || || ||||| || ||||||||||| |||||||||
gtatgttgcttgacattctttcggttttggcatttaaaattcgttctgtcaggagttagatattcttacctatccatgcatcactcgtgtgttaccttcctgtatgcatgtatctatcatgtatattttagtgtagcatcatgcattacaaaaatccgtttagtttttgggcctaatgtatgtgattaaatgtacagGTCATTGAGTTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATTGCACAACCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G00420.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------------------------------------gtttgttttgaactaaaatgcagtatcaccaaaatatgcacatt--------ctgatttgtg-aacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
                                                                                                    | | ||||    ||  ||   | || |  |||||  |   | |        || || | ||  |   ||  | |||||||||||||| |||||||||||||| || || ||||| || ||||||||||| |||||||||
gtactttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATTGCACAACCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctg---atttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
                                             || | | |   ||    ||    |||     ||| |  | ||  |    || | |   |     | ||||||||||||||| |||||||| ||||| ||| | ||||||   ||||||||||| || ||||||
gtatgcttagtgaatgagaaaccgaaactaaaagtcactacagtattggctatctcctctgttgtttcatccttttaatgtttatataatatctatatcttttctggtttatcagGTCATTGAGCTGCCAATCAAGCATCCTGAATTGTTTGAGTCTCTTGGAATTGCGCAGCCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------------------------gtttgttttgaactaaaatgcagtatcaccaaa----atatgcacattctgatttg------------tgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
                                                                                            ||  | |  |   ||     ||||| |  |     || | | |||| || |||             ||     | |||||||||||||||||||||||| ||||| || ||||| |||||||| |||||||| || |||||||||
gtttgtcctttgaccaattcttacatgttatttcattattattattaccattagcagcacttttaccttgatttaagttaggatttaaattcttaatctatagataagaaaggtatctcagatttttattttctcattttggtttaccttgtttttgttgtcttgatctttcagGTCATTGAGCTTCCAATTAAACACCCTGAACTGTTTGAGAGTCTTGGAATAGCTCAACCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
               | || || |||  ||   |    | |     ||||       |  |    |||    | | | ||||||| ||||||||||||||||| ||||| ||| ||||||| || ||||| || || |||||||||
gttagctatatgagagcttcttctgattta---tttgttttggttgaaatccttctgtcttatgctgtct-taaacccttcagGTTATTGAGCTTCCAATCAAGCATCCTGAATTATTTGAAAGTCTTGGTATAGCTCAACCAAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ20576 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
||  ||||||  |||   |    | || |    |  |  |  |||| ||||    |      | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
gtcagttttgg-ctatgct----tttcccttcgaggttaagtttcttatttc---atttctttctcagGTTATTGAGCTTCCGATCAAGCATCCTGAGCTTTTTGAGAGCCTGGGTATTGCACAGCCGAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ04162 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
||  ||||||  |||   |    | || |    |  |  |  |||| ||||    |      | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
gtcagttttgg-ctatgct----tttcccttcgaggttgagtttcttatttc---atttctttctcagGTTATTGAGCTTCCGATCAAGCATCCTGAGCTTTTTGAGAGCCTGGGTATTGCACAGCCGAAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ28638 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
||  ||||||       ||||  |  |     ||  || |  |||| ||||    |      | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
gtcagttttggct----atgcttttcccttcgaagttg-agtttcttatttc---atttctttctcagGTTATTGAGCTTCCGATCAAGCATCCTGAGCTTTTTGAGAGCCTGGGTATTGCACAGCCGAAG

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|32941875|gb|CF046694.1|CF046694
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|6989624|gb|AW447837.1|AW447837
EST:     TGGAGGTCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: TGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|19350715|gb|BM895247.1|BM895247
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|211070411|gb|FL012986.1|FL012986
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|67024358|gb|CO453107.1|CO453107
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|19350732|gb|BM895264.1|BM895264
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|60395128|gb|DN227997.1|DN227997
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|32866277|gb|CF005959.1|CF005959
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
EST: gi|32933070|gb|CF037882.1|CF037882
EST:     CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT
genomic: CATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG
                                                ctttc  CT-rich tract
                 aaaatat  TA-rich tract