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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatttgcatcaaaatctttatatttcttgttttgttgccaccatcaggagtatttagttgaccttttcttttattatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCA

Basic information

species Zea mays
transcript GRMZM2G079256_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 7
----gttaatttgcatcaaaatctttatat--ttcttgttttgttgccaccatcaggagtattta-gttgaccttttcttttattat-cacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCA
    |  | | |   ||    ||||||| |  || | ||  | |    | | ||   |  | | |  |  |  |||| || | || | | ||||||||| ||| ||  |||| ||||||||||| | ||| || ||||||||| |||||||||||||||| ||||   | |||||||| |||||||||||||| |
gtatgccactatctttctctttctttatctcattgtcgtcatctgattatcctcgtcatcactaacatctatttttttttattttctgctcaaagGTAAAAAACTCTTTGCTGGAGACATCAAGAAAAGGGTATCTTGCTGCAGTTTCAGCATCTAGTTACTCTTTCATCTCTTTACTCCAACACTTCCTTCCTA

upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 7
gttaatttgcatcaaaatcttta-tatttcttgttttgttgccacca-tcaggagtatttagttgaccttttcttttattatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCA
       | ||  ||| || ||| ||    |||   |  |   |  | |  ||  |||  | || |        |  | | | | | |||| || ||  || || | ||||||||  ||| |||||| ||||||||||| || ||||||||||| || ||||||||||||||  | || || ||||| |
------gtacaataaattcattaataagcattgaagttcttttatgaatttggtatatg-actttaataaaaagtaaactctgatatagGTGACCAAACCATTGTTGGAGACATCTCGGAAAGGATATCTTGCTGCAATATCTGCATCTAGTTACTCCTATGTTTCTTTACTCAAGCATTTTCTTCCAA

upper sequence: GRMZM2G079256_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 8
gttaatttgcatcaaaatctttatatttcttgttttgttgccaccatcagg--agtatttagttg-accttttcttttattatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCA
     |  | || || |  || ||| |     ||    | ||   ||       |||| | |||  |       ||| | | | |   |||| || ||  || || | ||||||||  |||  || || ||||||||||| || ||||||||||| || ||||||||||||||  | || || ||||| |
----gtacg-ataaatacattaataataagcattgaagttcctttatgcatttggtatctggttttaataagaatttaactctgatgtagGTGACCAAACCATTGTTGGAGACATCTCGGAATGGGTATCTTGCTGCAATATCTGCATCTAGTTACTCATATGTTTCTTTACTCAAGCATTTTCTTCCAA

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|60345537|gb|DN212510.1|DN212510
EST:     ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAG                         GTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATT
genomic: ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAGgttaatttgc ... tatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATT
EST: gi|31356068|gb|CD440425.1|CD440425
EST:     ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAG                         GTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATT
genomic: ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAGgttaatttgc ... tatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATT
EST: gi|78076466|gb|DV504900.1|DV504900
EST:     ACTTTGGTAGCATTGATATCTTTGTACACTCTCTCGCCAACGGTCCTGAG                         GTAACAAAGTCACTG
genomic: ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAGgttaatttgc ... tatcacaaagGTAACAAAGTCACTG
EST: gi|67011703|gb|CO440452.1|CO440452
EST:     CTTTGGTAGCATTGATATCCTTGTACACTCTCTCCGC-AACGGTCCTGAA                         GTAACANAGTCACTGCTTGAGACATCAAGGAGAGGATACCCTTGCTGCAAT
genomic: CTTTGGTAGCATTGATATCCTTGTACACTCTCTC-GCCAACGGTCCTGAGgttaatttgc ... tatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACC-TTGCTGCAAT
EST: gi|71332949|gb|DR803501.1|DR803501
EST:     ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAG                         GTAACAAAGTCACTGCTTG
genomic: ACTTTGGTAGCATTGATATCCTTGTACACTCTCTCGCCAACGGTCCTGAGgttaatttgc ... tatcacaaagGTAACAAAGTCACTGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttgccaccatcaggagtatttagttgaccttttcttttattatcacaaagGTAACAAAGTCACTGCTTGAGACATCAAGGAGAGGATACCTTGCTGCAATTTCAGCATCTAGTTATTCTTATGTTTCTTTACTTCAACACTTCCTTCCCA
                          agttgac  putative branch site (score: 4)
                                ccttttcttttattat  CT-rich tract
                                  ttttcttttattatca  TA-rich tract