Sequence
atgc intronic sequence ATGC exonic sequencegtacgccttacctttcattcttcccttttgcagtttgttagaattgagtgagtgagggtgtatgcttgttagagtggaccgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGAGTTCAGGTTGAAGTGGGATGACATGCTTATAC
Basic information
species | Glycine max |
transcript | GLYMA20G36050.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36050.2 (Glycine max), 3'ss of exon 2
lower sequence: AT1G64720.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacgccttacctttcattcttcccttttg---cagtttgttagaattgagtgagtgagggtgtatgct-tgttagagtggaccgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGAGTTCAGGTTGAAGTGGGATGACATGCTTATAC
|||| || || | | | ||| ||| | |||| ||| | | | | | || ||| ||| || || |||||||| |||||||| ||||| || || || | ||| ||| |||| ||||| ||||||||||||||||||||| | | |||||||
gtacccccctccctccttcctttaagtttagtttaacatgttcctccaagttgaatcattttttgtatgatgccagAATGGGCCTCCCCAGTACCGTAGCAGAACTGTGTTTGAGGATGCCACTCCCGAGATGGTCAGGGACTTCTTTTGGGATGATGAGTTCCGTTCCAAGTGGG---------------
upper sequence: GLYMA20G36050.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g02820.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------gtacgccttacctttca----ttcttcccttttgcagtttgttagaattgagtgagtgagggtgtat---gcttgttagagtggaccgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGAGTTCAGGTTGAAGTGGGATGACATGCTTATAC
| || || || | | || ||| | |||| ||||| ||||| | | | | | ||| |||| ||| || || || || || ||||| || | || || || || | ||||||||||||||||||||||||||||||||||| || || ||||||||||
gtaggctttctttctcttagtattttctcttaggcatttggtggaataagaataaatgaattagcacccagaagttagcacatatgattcttccttctagggcttgctctattttatacaaatagttaaatttcatatcttgt-gcgattgattgagttaaattctgttgggtttgctagACTGGCCCTCCACAATATCGTAGCAGTACTATCTTTGAGGATGCTACTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGGCTTTAGATTGAAGTGGG---------------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|209727482|gb|BW669884.1|BW669884EST: ACCGTTCTACCCCGACCATGACCTATCAAGCGTGGCGTAGGGATCCTGAG TACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGAT
genomic: ACCGTTCTACCCCGACCATGACCTATCAAGCGTGGCGTAGGGATCCTGAGgtacgcctta ... accgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttagaattgagtgagtgagggtgtatgcttgttagagtggaccgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGAGTTCAGGTTGAAGTGGGATGACATGCTTATAC
ttagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgccttacctttcattcttcccttttgcagtttgttagaattgagtgagtgagggtgtatgcttgttagagtggaccgccgcagTACCGGAGCAGAACGGTGTTCGAAGACGCGAGTCCTGAGTTGGTGAGGGATTTCTTTTGGGATGATGAGTTCAGGTTGAAGTGGGATGACATGCTTATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG