Sequence
atgc intronic sequence ATGC exonic sequenceTCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatcctcaagtttttgatttaggacaatttgatttgatgtgaataaaggtgtctgacatgtatccttttgcag
Basic information
species | Glycine max |
transcript | GLYMA08G02960.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 5'ss of exon 2
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaa-gacatcct--caagtttttgat-ttaggacaatttgat--ttgatgtgaataaaggtgtctgacatgtatccttttgcag
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCTGTGAACCCAGAGAGGACCATCTTCGATGTCAAACGTCTCATTGGAAGAAAgtaatggcactttaccctatgctcgctcttatttcctgttgttgatcactgctgcctgatctgacctgtataattattcttgcag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 2
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatcctcaagtttttgatttaggacaatttgatttgatgtgaataaa----ggtgtctgacatgtat--ccttttgcag--
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCTGTCAACCCTGAGAGGACCATCTTTGACGTCAAGCGTCTCATCGGAAGAAAgtagtgcctctctcccacaattgcttctattatttcgtctcgctgtgggttatgtctggcgtcttacctgtaatgcccattgcttag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G114793_T01 (Zea mays), 5'ss of exon 2
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatc-ctcaagtttttgatttaggacaattt-gatttgatgtgaataaaggtgtctgacatgtatccttttgcag----------------
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCCGTCAACCCTGAGAGGACCATCTTTGACGTCAAGCGTCTCATCGGAAGAAAgtaacacctctctcctacagttacttctgttgaatttcgtctcgttgtgggtta---tttctggcgtcttaactttagtaatgccccatttatttag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 2
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaag----acatcctcaagtttttgatttaggacaatttgatt-tgatgtgaataaaggt-gtctgacatgtatcct--tttgcag-------------------
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TCACTGACACTGAAAGGTTGATTGGTGAGGCTGCAAAGAATCAGGCGGCTGTCAATGCCGAGAGGACTGTATTTGATGTCAAGAGACTCATTGGAAGAAAgtatgtgataaatcctttaatctcctttctgttcatattcgttgatcttttgaatgaagcccatcaaggctctaacctggttttttgccttttgttttttctgtag
upper sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 2
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatc-------ctcaagtttttgatttaggacaatttgatttgatgtgaataaaggtgt--ctgacatgtat-----ccttttgcag
|||| |||||||||||||| ||||| |||||||| ||||| | ||| |||||||| | |||||| ||||||||||| ||||| |||||||||||||||||| || || || ||| ||||| | || | ||| ||| | || || || | | |||| | | | ||| |||
TCACTGACAGTGAGAGACTGATTGGTGAGGCTGCGAAGAACCAGGCGGCTGTCAATGCCGAAAGGACTATCTTTGATGTGAAGAGGCTTATTGGAAGAAAgtaatacgtctatctatctaaagcttttggtctatg--cattgtattagttggcaaggaactttttgctgaggcttttaatcacttttgacagMapped 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|120530199|gb|EH258333.1|EH258333EST: GTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAA GTTTGAAGATAAGGAAGTTCAACGAGACATGAAGCTTGTTCCTTATAAGAT
genomic: GTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatc ... ccttttgcagGTTTGAAGATAAGGAAGTTCAACGAGACATGAAGCTTGTTCCTTATAAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACCGACAGTGAGAGACTCATTGGGGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGGTCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacatcctcaagtttttgatttaggacaatttgatttgatgtgaataaaggtgtctgacatgtatccttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA