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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG

Basic information

species Zea mays
transcript GRMZM2G107362_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 3
gtttgttttgaactaaaaagcactgtcattaaa----atat-gcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
|||||| |  || |  || | ||| |   |  |    |||| ||||||||||| |  ||||||||||||| |||||||||| ||||| ||||||||||| || || |||||||| ||||||||||| |||||||||
gtttgtatataatttcaatgtactattgatgcatcgcatatagcacattctgactcatgaactcaacttttagGTCATTGAACTTCCTATCAAACATCCAGAGCTATTTGAGAGTCTTGGAATTGCCCAACCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------------------------------------------------gtttgttttgaactaaaaagcactgtcattaaaatatgcacatt--------ctgatttgtg-aactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                                                                                                                        || | ||||    ||  |       | |  |||||  |   | |        || || | ||  | | ||  | |||||||||||| | |||||||||||||| || |||||||| || ||||||||||| |||||||||
gtatgttgcttgacattctttcggttttggcatttaaaattcgttctgtcaggagttagatattcttacctatccatgcatcactcgtgtgttaccttcctgtatgcatgtatctatcatgtatattttagtgtagcatcatgcattacaaaaatccgtttagtttttgggcctaatgtatgtgattaaatgtacagGTCATTGAGTTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATTGCACAACCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G00420.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------------------------------------------------gtttgttttgaactaaaaagcactgtcattaaaata--tgcacattctgatttgtg-aactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                                                                                                          || || | | |  |   |  |     ||||   ||  |    |  || || | ||  | | ||  | |||||||||||||| |||||||||||||| || |||||||| || ||||||||||| |||||||||
gtactttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATTGCACAACCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------gtttgttttgaactaaaaagcactgtcattaaaatatgcacattc---tgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                           |||||||  |||||   | |   | |  |  ||    | || | |  |||    | |||||||||||| || |||||||| ||||| ||| ||||||||   |||||||||||||| ||||||
gtatgcatagtgaaagaaacaaacgatactaaaagtcactggtttcatgcttttaaattttatataatatctttactggtttatcagGTCATTGAACTGCCAATCAAGCATCCTGAATTGTTTGAGTCTCTTGGAATTGCGCAGCCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctg---atttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                                             || | | |   ||     |     || ||  ||| |  | ||  |    || | |   ||    | ||||||||||||||| |||||||| ||||| ||| ||||||||   |||||||||||||| ||||||
gtatgcttagtgaatgagaaaccgaaactaaaagtcactacagtattggctatctcctctgttgtttcatccttttaatgtttatataatatctatatcttttctggtttatcagGTCATTGAGCTGCCAATCAAGCATCCTGAATTGTTTGAGTCTCTTGGAATTGCGCAGCCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------------------------------------------------gtttgttt-tgaactaaaaagcactgtca--ttaaaatatgcacattctgatttg------------tgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                                                                                            ||  | | |  |  | ||||   | |||  ||   || | | |||| || |||             ||   | | |||||||||||||||||||||||| ||||| || |||||||||||||| |||||||| || |||||||||
gtttgtcctttgaccaattcttacatgttatttcattattattattaccattagcagcacttttaccttgatttaagttaggatttaaattcttaatctatagataagaaaggtatctcagatttttattttctcattttggtttaccttgtttttgttgtcttgatctttcagGTCATTGAGCTTCCAATTAAACACCCTGAACTGTTTGAGAGTCTTGGAATAGCTCAACCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaa--ctttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
               | || || |||  ||        | |  || ||||       |  |    |||   || ||  | ||||||| ||||||||||||||||| ||||| ||| | ||||| || ||||| || || |||||||||
gttagctatatgagagcttcttctgatttatt---tgttttggttgaaatccttctgtcttatgctgt---cttaaacccttcagGTTATTGAGCTTCCAATCAAGCATCCTGAATTATTTGAAAGTCTTGGTATAGCTCAACCAAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ20576 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
||  ||||||       | ||  |  | ||  |   |  |  |||| ||||    | |    | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
gtcagttttggct----atgcttttcccttcgag-gttaagtttcttatttc---atttctttctcagGTTATTGAGCTTCCGATCAAGCATCCTGAGCTTTTTGAGAGCCTGGGTATTGCACAGCCGAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ04162 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
||  ||||||       | ||  |  | ||  |   || |  |||| ||||    | |    | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
gtcagttttggct----atgcttttcccttcgaggttg-agtttcttatttc---atttctttctcagGTTATTGAGCTTCCGATCAAGCATCCTGAGCTTTTTGAGAGCCTGGGTATTGCACAGCCGAAG

upper sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ28638 (Selaginella moellendorffii), 3'ss of exon 3
gtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
||  ||||||       | ||  |  | ||  ||  || |  |||| ||||    | |    | |||||| ||||||||||| ||||| ||||| || || ||||||||||| || ||||| || || |||
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|32837096|gb|CD976774.1|CD976774
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCTGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32837479|gb|CD977157.1|CD977157
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCTGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32846543|gb|CD986224.1|CD986224
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32928502|gb|CF033314.1|CF033314
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32848420|gb|CD988101.1|CD988101
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|60398970|gb|DN231786.1|DN231786
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32836218|gb|CD975896.1|CD975896
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCTGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT
EST: gi|32836397|gb|CD976075.1|CD976075
EST:     CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAG                         GTCATTGAGCTTCCAATCAAACATCTGGAACTGTTTGAGAGCCTTGGAATT
genomic: CCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttg ... caactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcagGTCATTGAGCTTCCAATCAAACATCCGGAACTGTTTGAGAGCCTTGGAATTGCGCAACCAAAG
                                                ctttc  CT-rich tract
          tgtcattaaaatat  TA-rich tract