Sequence
atgc intronic sequence ATGC exonic sequenceTTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgtctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag
Basic information
species | Glycine max |
transcript | GLYMA01G41790.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os06g01650.2 (Oryza sativa), 5'ss of exon 6
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtac--agttgtctatcttt-tatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag
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TTGGCAAGAGAATTTGGCTATTATAACTGCAAACAGGACGAAAGGTGATGATCTTGTAATTACGCACCTTGGAGATTGCCTCTGGAAAGAGAAAAATGAGgtttgaatctggctagttgagtatatgatttattgacatggttttgtcaaataccttacatatttttatgcag--------------
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G107218_T01 (Zea mays), 5'ss of exon 1
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtaca-gttgt-ctatcttttatttattttc--tttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag
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TTGGGAGGAGAATTTGGCTATTATTACTGCAAACAGAACAAAAGGTGACGTTCTAGTAATCACCCATCTTGGTGATTGCCTCTGGAAAGAAAAAAATGAGgtttgtattatatcatattgtttttagattcagtttcatactttttgtgtatatatgcagtgaagtaccttatacacaatgtatacag
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G480185_T01 (Zea mays), 5'ss of exon 1
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgtctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag----------
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TTGGGAGGAGAATTTGGCTATTATTACTGCAAACAGAACAAAAGGTGACGTTCTAGTAATCACCCATCTTGGTGATTGCCTCTGGAAAGAAAAAAATGAGg----gttgtat-tatatcatattgtttttagattcagtttcatacttttttgtgtatatatgcagtgaagtaccttatacacaatgtatacag
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G104958_T02 (Zea mays), 5'ss of exon 7
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtac-agttgtctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag
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CTGGCAAGAGAATTTGGCTATTATAACAGCAAACAGGACAAAAGGTGATGACCTTGTAATTACCCGCCTTGGGGATTGCCTTTGGGAAGAGAAAAATGAGgttcgagtcttgtgtgatgaatacagcctctttttcag---ttataaggtcgagtctaatggaccattta----ttttatgaag-
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G429241_T01 (Zea mays), 5'ss of exon 6
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgtctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag----------
||||||||||||| ||||| | || |||||||||||||| ||||||| | || ||||| | || |||||||||||| | ||||| |||| || |||||| | || | |||| || | ||| | | | | ||| |||||||| | | || | | | |||||
TTGGGAGGAGAATTTGGCTATTATTACTGCAAACAGAACAGAAGGTGACGTTCTAGTAATCACCCATCTTGGTGATTGCCTCTGGAAAGAAAAAAATGAGgt-ctgtattatatc----atattgtttttagattcagtttcatacttttttgtgtatatatgcagtgaggtaccttatacacaatgtatacag
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 5'ss of exon 6
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtaca-gttgtctat-cttttatttattttcttta---atgacttttg-----tactttttcattctgcttctcatttaagactcttattttag
|||||| |||||| ||||||| |||||||| || ||||| |||| ||||||||||||| ||||||| ||||| |||||||| ||||||||||||||||||||| | | || | | | |||||||| | |||| || ||| || || | ||| | | || | | ||| | | || ||
TTGGGAAGAGAATTTGGCTGTGATAACTGCCAATAGAACAAAAGATGATGAACTTGTACTTATTCATCTTGGAGATTGCTTATGGAAGGAAAGAAGTGAGgtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcag
upper sequence: GLYMA01G41790.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 5'ss of exon 7
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgtctatcttttatttattttctttaatgacttttgtactttttcattc-----tgcttctcatttaagactcttattttag-----------------
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ATGGGAAGAGAATTTGGCCATAATAACTGCTAACAGAACAAAAGATGATGAGCTTGTTATTATTCATCTTGGTGATTGCCTATGGAAGGAGAGGGGTGAGgtata-tgctctatggtttctttacact-tgagttgtctcctgttctttttctccaaaaggtgtcagtcctcctcggcattgcccttacagataactattgtacagMapped 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|21888423|gb|BQ741636.1|BQ741636EST: AACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAG ATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCA
genomic: AACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgt ... cttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGGAGGAGAATCTGGCTGTAATAACTGCAAACAGAACCAAAGGTGATGAACTTGTAATTATTCACCTTGGTGATTGCTTGTGGAAGGAAAGAAGTGAGgtacagttgtctatcttttatttattttctttaatgacttttgtactttttcattctgcttctcatttaagactcttattttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT