Sequence
atgc intronic sequence ATGC exonic sequence...ggatgcattgtttagtagcatttactttgtgatctgtgtctcagtttgtgttgtaaagactagctgtactcagtctactgtgatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
Basic information
species | Glycine max |
transcript | GLYMA18G31780.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 6
----------------------ggatgcattgtttagtagcatttactttgtgatctgtgtctcagtttgtgttgtaaagactagctgtactc-agtctactg--tgatttgt-tttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
| ||| || | | | ||||| |||| | || | ||||| | | || | | | | | || ||| |||| ||||||||||||||||||| |||| ||||| || ||||| || || ||||| || || ||||| ||||| ||||| || |||
gtaagctgcagtatgccttttttgccatattacttggaaatagatactt-gtgaaccatgaggattactaatttgtacgatcctcccaagttccaacccaaggcctaatctgtctttatttcatagGAAGTTGCTGAAACTGTGAAGAATGACTTTGGTACCATTGACATCCTCGTACACTCTCTTGCAAATGGTCCTGAG
upper sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G125052_T01 (Zea mays), 3'ss of exon 4
------------------------------------------ggatgcattgtt--tagtagcatttactttgtgatctgtgtctcagtttgtgttgtaaagact---agctgtactcagtct---actgtgatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
|| | || || ||| || | | || | | | ||| | | | | || || | || | | || || | | || | || | ||||||||| |||||| || ||||| |||||||||| || |||||||| |||||||| ||||||||||| ||||||
gtgtgtgattgccaatcatttttctatatctgtagctgcctaggttttatacttgctagaagaaaatgctcaaaatacagctgcagagtgtttctcctgaaagctttagagcggacaaggacaataacattggtctccttgatttaacagGAAGTTGTTGAATCAGTGAAGAATGATTTTGGCAGCATTGACATACTAGTGCACTCTCTTGCTAATGGCCCAGAG
upper sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 6
-----------------------------------------ggatgcattgtttagtagcatttactttgtgatctgtgtct-cagtttgt-----gttgtaaagactagctgta---ctcagtctactgt--gatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
| | | || || ||| | | | | | || |||| ||| ||| | | |||| || || | || | || || | || | ||||||||| |||||| || | ||| |||||||||| || |||||||| ||||| || ||||||||||| ||||||
gtatgcagtcgccaatcatttttccatatgtatagctgcctaggttctatgcttgctagaagaaaatgctgaagatacaactgcagtgtgttacctgtttctcataaaagctttagagctgacaataacattgagctttcttaatttaacagGAAGTTGTTGAATCAGTGAGGAATGATTTTGGCAGCATTGACATACTAGTGCATTCTCTTGCTAATGGCCCAGAGMapped 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|15813360|gb|BI785635.1|BI785635EST: GTGAAAGCTAACAAACGCTATGCTGGAGCCACAAATTGGACTGTACAG GAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTG
genomic: GTGAAAGCTAACAAACGCTATGCTGGAGCCACAAATTGGACTGTACAGgtatagatta ... tacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgttgtaaagactagctgtactcagtctactgtgatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
ttttacttc CT-rich tract
atttgtttta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggatgcattgtttagtagcatttactttgtgatctgtgtctcagtttgtgttgtaaagactagctgtactcagtctactgtgatttgttttacttcatagGAAGTTGCTGAATCTGTCAAGAAAGATTTTGGCACTATCGACATACTTGTGCACTCGCTTGCTAATGGACCAGAG
ggatgca
- - - - - - - - - - - - ctttgtg
- - - - - - - - - - - - - - - -atctgtg
- - - - - - - - - - - - - - - - - - - - - -gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctactg