Sequence
atgc intronic sequence ATGC exonic sequenceTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttatattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata...
Basic information
species | Glycine max |
transcript | GLYMA20G02130.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os05g38490.1 (Oryza sativa), 5'ss of exon 9
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttatattttattttgttcaattttacgagggcagaat--aaattagat-gagttccccac---acacaccccacaaaaatttccccttcccttggcatata
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TCCTTATGGGTCACAGGAGATACTTGTATGCTGGGCATTCAAGGACAATTAAACCAGACAAAAGAAAACTAGCCATACTATTTGACAATCCACGTATTGGgtatgatgttgtgccgtgcatttacttttatgtacttttttttcaggccgtatagcattttctacgctataaacttcatgttgatagtcaattttctctg------
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: AC213621.5_FGT002 (Zea mays), 5'ss of exon 10
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttatattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata
|||| |||||||||| ||||||||||||||||| ||||| || |||||||||||||| || | | | | || |||| || |||||||| ||||||||| | || | || || || || |||| | | | || | | | | ||||| ||| | ||| |
TTCTTATGGGTCACAGGAGATACTTGTATGGTGGGCATTCAAAAACAATTAAACCAGACAAAAGAAGGCTTGCTGTACTCTTGGATAATCCACGTATAGGgtaggata-acactactt-gtccat-----cgagttttaagca--cttgaccatcttatttgttaaaaatcacaatt-tttattcatccgcag-------
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G148619_T01 (Zea mays), 5'ss of exon 3
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgtta-tattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata
|||| |||||||||| ||||||||||||||||| ||||| || |||||||||||||| || | | | | || |||| || ||||||| ||||||||||| || | | | | || | ||| || | | | | | | || | | | | || ||| || |
TTCTTATGGGTCACAGGAGATACTTGTATGGTGGGCATTCAAAAACAATTAAACCAGACAAAAGAAGGCTTGCTGTACTCTTCAATAATCCACGTATAGGgtatgataacactacttgtccatcgagttt-taagcac----ttgaccatcttatttgttaaaata--------acaatttttattcatccgcag------
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G419739_T01 (Zea mays), 5'ss of exon 9
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgtta-tattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata
|| | |||||||||| ||||||||||||||||| ||||| || |||||||||||||| || | | | | || |||| || ||||||| ||||||||||| || | | | | || | ||| || | | | | | | || | | | | || ||| || |
TTTTTATGGGTCACAGGAGATACTTGTATGGTGGGCATTCAAAAACAATTAAACCAGACAAAAGAAGGCTTGCTGTACTCTTCAATAATCCACGTATAGGgtatgataacactacttgtccatcgagttt-taagcac----ttgaccatcttatttgttaaaata--------acaatttttattcatccgcag------
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G170936_T01 (Zea mays), 5'ss of exon 5
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatg-ttatattttattttgttcaattttacgagggcagaataa---attagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata
|||| |||||||||| ||||||||||||||||| ||||| || |||||||||||||| || | | | | || |||| || ||||||| ||||||||||| | | | | | | || | ||| || | ||| | | | | | | | | | | | | ||
TTCTTATGGGTCACAGGAGATACTTGTATGGTGGGCATTCAAAAACAATTAAACCAGACAAAAGAAGGCTTGCTGTACTCTTCAATAATCCACGTATAGGgtatgataacactacttgtccatcgagttttaagcacttgaccatcttatttgttaaaataacaatttttattcatccgcaggtggacggcattgaagcg----
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G382792_T02 (Zea mays), 5'ss of exon 9
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatg-ttatattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata-
| || |||||||||| ||||||||||||||||| ||||| || ||||| |||||||| || | | | | | |||| ||||||||||| ||||||||||| ||| | || | | | || || | | | | || ||||| | || | | | |
TCCTTATGGGTCACAGGAGATACTTGTATGGTGGGCATTCAAAAACAATCAAACCAGACAAAAGAAGGCTTGTCGTACTCTTTGATAATCCACGTATAGGgtatgattaacactagttgtccatagtgttgttttggtttatcttgagttctaaacacttgccatcttgtttgttaaaatcacaattttcacttatgtgcag
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G094771_T01 (Zea mays), 5'ss of exon 9
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttatattttattttgttcaat------tttacgagggcagaataaattagatgagttcccca---cacacaccccacaaaaatttccccttcccttggcatata---------------------------------------------------------------------
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TTCTTATTGGGCATAGAAGATACTTGTATGGTGGCCATGCGAAGACAATTAAGCCCGATAAAAGAAGATTGGCTATACTCTTTGATAGTCCACGTATTGGgtatgttcagtgcccttatattcagtgccatactcattattagacatttgtttatctttatcttcagtgccatactcattattagaggtttggttatctttatcttcagtgccgttatattctcaactctcaaacatgaaattttcagcttgttaatatcagttttggttgtgtgcag
upper sequence: GLYMA20G02130.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv01s0011g05000.t01 (Vitis vinifera), 5'ss of exon 9
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgt-tatattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata---
|||| |||| |||||||| ||| ||||||| ||||| ||||| ||| ||| || || ||||| ||||| || ||||||||||| ||||| ||||| ||||||| | || | || | | | || ||| || | | |||| | | | | |||| | | ||||| | | |
TTCTAATGGGCCACAGAAGGTACCTGTATGGAGGACACTCCAAAACAGTTAGGCCGGACAAGCGAAAGTTAGCATTACTGTTTGACAATCCTAATATTGGgtatgcatccatctcatatctgtaagttaccatttggctcaagtgctgggtggagtg----aaatggaattgataaaactgttaggatccctcttgagacagcaMapped 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|7588749|gb|AW704538.1|AW704538EST: AAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGG ATGGAAAAGTCTCAAGCGTCAACTGCTGAGCATGAGGTCGCATAGTGATTC
genomic: AAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttata ... tcctttccagATGGAAAAGTCTCAAGCGTCAACTGCTGAGCATGAGGTCGCATAGTGATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGATAAGCGGAAGTTGGCGTTACTGTTTGATAATCCCAATATAGGgtatgttatattttattttgttcaattttacgagggcagaataaattagatgagttccccacacacaccccacaaaaatttccccttcccttggcatata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcccc