Sequence
atgc intronic sequence ATGC exonic sequenceTTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
Basic information
species | Glycine max |
transcript | GLYMA20G25650.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 5'ss of exon 5
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
||| ||||| || ||||| ||||| |||||||| || ||||||| |||||| || || | ||||| ||||| |||||||||||||||||||||| | || | | | || || | ||| || | || || || ||||| | | | | || ||| | |||| || | | ||
TTCGGTACTTATAACTGCTGTGATTACTGATGCAATTAAGGATGGTGTTGGTCGTCCTCGCCCAGATTTCTTTTGGCGTTGTTTCCCTGATGGAATACCTgtaatctccttgtgctag----tgtcctgatctca-gatattaaactt--catgtagtctgca--ggttatattgaagtaacaaatcgtttcatttttcag-------------------
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 4
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactg-cttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
||| || || || ||||| ||||| |||||||| || ||| ||| |||||| || ||| | ||||| ||||| ||||||||||||||||||||||| || | | |||| | | | | | | ||| |||| | || | || | || | | | || | ||| | | || || || | ||
TTCGGTGCTTATAACTGCTGTGATTACTGATGCAATTAAGAATGGTGTTGGTCGCCCACGCCCAGATTTCTTTTGGCGTTGTTTCCCTGATGGAAAGCCTgtaatatcc---ttttgtaaatt-ctgatttctctccttaa-------gcaatttcattcctatcgacatgtacttggtttagttctgtttatttcttttttttttacaga----------
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G024615_T05 (Zea mays), 5'ss of exon 5
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctca-ataaacgccccattggtgcatgacatgtttag-
|| || ||||| ||||| ||||| |||||||| || ||||||| |||||||||||| | ||||| || |||||||| ||||||||||||||||| | || || | ||| ||| | || ||| | | || | | |||| | | ||| | ||| | || ||| | | | | || ||||
CTCAGTGCTCATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTGATGGAAATGATgtaagataaaaat-----aaactaacttatagtcctgt-agcaagttcatc-tgtgttg------atatgtatatggttcaaaacttgcatagaatctgggctaat-tgcattatctttaag
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G050658_T01 (Zea mays), 5'ss of exon 5
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
|| || || || ||||| ||||| |||||||| || ||||||| |||||||||||| | ||||| || |||||||| ||||||||| ||||||| | || || | ||| | ||| |||| || | || | || || || | | | | ||| || ||| | || |
CTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAATGGAAATGATgtaagatgaaaat---aaaaactt-----atattcctgtagcaagttcatgttggtatgtatatggttcaaaattgcataaaatctggctaattacattatctttaag------------
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G077187_T01 (Zea mays), 5'ss of exon 4
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagtt-aactgctcaataaacgccccattggtgcatgacatgtttag
||| ||||| |||||||| || | |||||||| || ||||||| |||||| || ||| | || || |||||||||||||| ||||||||||||||| || | | | | || | | | | | |||| ||||| || || | | || | || || || || ||| | || | | |||||
TTCAGTACTTATTACTGCTGTTTTAACTGATGCGATAAAGGATGGTGTTGGGCGACCACGTCCTGATTTCTTCTGGCGTTGCTTCCCTGATGGAAAACCTgtaaaactcctaacttttagtc-------aaaccttgataataactcacttgaagcccttgtgcaattacattgcatttgaattgtataagaaat--cttatgaatttacttggcctttag
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G447433_T08 (Zea mays), 5'ss of exon 6
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgt-agttaactgctcaataaacgccccattggtgcatgacatgtttag
||| || || || ||||| ||||| |||||||| || ||||||| |||||| || || ||||||| ||||| ||||||||||| |||||||| ||| || | | | | || || || | ||| | | |||| ||| || | || || | || || || | |
TTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCTgtaaatcct----tccatcag-tgtcatttttctttgcaagt--tcatacc-tgttgaacctgtagccactaaatcagatatttgttatccag----------------------------
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatct--tgttaatatctttaccatgtgata--cgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
|||||||| || || || || || |||||||| || || ||||||||||| || || | ||||||||||| ||||||||||||||| |||| ||||||||| | | || ||| || ||| | || | | | || || || | | || | | || | || ||| | |||| ||| |||||||||| | || ||
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ16251 (Selaginella moellendorffii), 5'ss of exon 3
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagtttt-caattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
| || || |||||||| || | |||||||| ||||| || || |||||||| |||||||| || ||||||||||| ||||| || ||||| | | ||| ||| | | | | | | | | || || || || ||
CGCGGTGCTTATTACTGCTGTTCTTACTGATGCGATCAAAGACGCAGTTGGACGTCCAAGGCCTGATTTCTTCTGGCGGTGTTTTCCAGATGGCATACCGgtaagtcctgctagacaaccaaacgtggatcttactcgtgaagtgctccacag--------------------------------------------------------------------
upper sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ17723 (Selaginella moellendorffii), 5'ss of exon 3
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
| || || |||||||| || | |||||||| ||||| || || |||||||| |||||||| || ||||||||||| ||||| || ||||| | | ||| ||| | | ||| |||| | || | | || | ||| ||
CGCGGTGCTTATTACTGCTGTTCTTACTGATGCGATCAAAGACGCAGTTGGACGTCCAAGGCCTGATTTCTTCTGGCGGTGTTTTCCAGATGGCATACCGgtaagtcctg------ctagacaaccaa---acctggatcttactcgtgaaatgctccacag----------------------------------------------------------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|151413050|gb|EV282858.1|EV282858EST: GACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGG GTGTTTGATCCAGTAACAAGTAATGTTCTGTGTACTGGAGATAAGGGTGTT
genomic: GACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttc ... acatgtttagGTGTTTGATCCAGTAACAAGTAATGTTCTGTGTACTGGAGATAAGGGTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatcttgttaatatctttaccatgtgatacgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA