Sequence
atgc intronic sequence ATGC exonic sequenceCTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
Basic information
species | Glycine max |
transcript | GLYMA08G13680.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 5'ss of exon 16
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
|||| |||||||| || ||||| || || || ||||| ||||| ||| |||||||||| | || ||||||||||| ||| | |||||| |||| ||||||| |||| ||| || || | | |||| ||| ||| |||| | | | ||| | |||| | | | | ||||| | |||| |
CTGTTATTTATAGCAGCAACAAGAAGTTGCTGTATAGCAATGTCAATTTGAAGGAAGTCAACCATATGTGTCCTTTTAATACAGCTGCTATTCCTGACAGgtctcttcatctctgata--------tgcatcagttctttgtgcatcttcttg-attttacactgatatg----aattatgtacagagtgttttatatctttggacaaatgtt---------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 5'ss of exon 16
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
|||| || ||||| | ||||| || || | || || || ||||||||||| ||||| ||||| |||||||| ||||| ||||||||||||||||||||||| | ||| | | | || | | | | || | ||| | ||| ||| | | || || |
CTGTTATATATAGCAACAACAAGAAGCTATTATACAGCAACGTGAATCTGAAAGAAGTTAGTCATATGTGTCCCTTCAACTCTGCTGCTTTTCCAGACAGgtaaactatatttttcctctgttattttcctttgggatcaaagtacattgtggtgaaatc--tggctctacttctcttccattggcag----------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: AT4G05420.2 (Arabidopsis thaliana), 5'ss of exon 15
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
| || || ||||| || ||||| || | | ||||| ||||| ||||| || ||||| ||||| ||||| ||||||||||||||||||||||| |||||||| | | | | ||| ||| | || | || | | || | || | || || | | | |||||| | || || | || || | |
CCGTGATCTATAGCAGCAACAAGAAGCTGTTATATAGCAATGTCAATCTTAAAGAAGTTAGTCATATGTGCCCTTTCAATTCTGCTGCTTTTCCCGACAGgtacactaaacatcctctctttttcttgtcggtttttgctttgaatttctaattcctata--tgaagct-----aagtggctctgaaatctgattctc-tgttctatcttatgagcag----------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 16
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
| || ||||| || |||||||| || |||| || || ||||| ||| |||| ||||| || |||||||| |||||||||||||||||||||||||| ||||| ||| ||| | || |||| | ||||| ||| | | || ||||| | | | | || ||| ||||| | | || | | |||| | | | |
CGGTGATTTACAGCAGTAACAAGAAGCTACTCTACAGCAATGTTAATTTGAAAGAAGTCAGCCACATGTGCCCTTTCAATTCTGCTGCTTTTCCAGATAGgtacctt-----ttgctgcctttacttgttg----cttttacttattgttctttact-ttcttccaacgtatgca------tgtgaaatcataca-----gaaaaaattcatttccaatga-------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: EFJ30457 (Selaginella moellendorffii), 5'ss of exon 16
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
| || ||||| ||||| ||||| || | ||||| || || |||||||||||||| |||| ||| |||||||||||||| ||||| ||||||| ||||||| || | | ||| || || || | || ||| | || || | |
CGGTCATTTACAGTAGCAACAAGAAGCTGCTTTACAGCAACGTGAATCTGAAGGAGGTGAATCATATGTGTCCTTTCAACTCTGCATCTTTTCCCGACAGgt---ctgtttctagttctctt---ttgtgagctctattaacaagcttttgtttgtcgtaatcag---------------------------------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 16
lower sequence: EFJ23079 (Selaginella moellendorffii), 5'ss of exon 16
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
| || ||||| ||||| ||||| || | ||||| || || |||||||||||||| |||| |||||||||||||||||| ||||| ||||||| ||||||| || | | ||| || || || | || ||| | || || | |
CGGTCATTTACAGTAGCAACAAGAAGCTGCTTTACAGCAACGTGAATCTGAAGGAGGTGAATCACATGTGTCCTTTCAACTCTGCATCTTTTCCCGACAGgt---ctgtttctagttctctt---ttgtgagctctattaacaagcttttgtttgtcgtaatcag---------------------------------------------------------------------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|24205748|gb|BU965001.1|BU965001EST: AAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAG TTTGGCAATTGCAAAAGAAGGTGAGCTTACTATTGGCACTATTGATGATAT
genomic: AAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggt ... actgaaacagTTTGGCAATTGCAAAAGAAGGTGAGCTTACTATTGGCACTATTGATGATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGTAATTTATAGTAGTAACAAAAAATTACTTTATAGTAATGTGAATCTGAAGGAAGTGAGTCACATGTGTCCTTTCAATTCTGCTGCTTTTCCAGACAGgtatcttggtctttgttagtttgacttactagagttgtttacatatccccttgtgctgttcttggatcttgtacaatttaatgtaaaatcttttactggtgatgacactcatctactgttaataactgaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT