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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcgtcatttcttcttgcacatgcttaataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG

Basic information

species Zea mays
transcript GRMZM2G161418_T06
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161418_T06 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G25450.3 (Glycine max), 3'ss of exon 8
-----gttagtcgtcatttcttcttgcacatgcttaataataccg--ccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
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gtaatatttttgcttataattccccccctccccccaatttttttggctcactggatttttatttatctgt-tttcat-ttccatt--ttttagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG

upper sequence: GRMZM2G161418_T06 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
-------gttagtcgtcatttcttcttgcacatgcttaataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
|| | ||||| |||| | | | | | || || || || || |||| | |||||| | |||||||||| ||||| ||||||||||| |||||||| |||||||| || | ||||| || |||| || |||||
gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgtt---ttca-attccattttc---agGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
















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|18163021|gb|BM332860.1|BM332860
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCA
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCA
EST: gi|8930534|gb|BE225298.1|BE225298
EST:     TTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCA
genomic: TTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCA
EST: gi|166531265|gb|EG288612.1|EG288612
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAG
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAG
EST: gi|32914682|gb|CF019494.1|CF019494
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGGGAGGAGACCTACACTGCCTTTGAAAACATCTATCCTGTACTGTCA
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCA
EST: gi|7137809|gb|AW499281.1|AW499281
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAGACCTACACTGNNCCTTCGAAAACATCTATCCTGTACTGT
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAGACCTACACTG--CCTTCGAAAACATCTATCCTGTACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
 gcttaat  putative branch site (score: 4)
 tttgcttctcttttcc  putative PPT
 atttcata  TA-rich tract