Sequence
atgc intronic sequence ATGC exonic sequencegtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
Basic information
species | Glycine max |
transcript | GLYMA13G28720.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 13
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
||||| || || | | | || | | | | | | | || | | || || ||| | ||| || | | |||| || ||||| ||||| || | |||||||| |||||||| || |||||||| |||||||||||||| || ||||||||||||||||||||||| | ||
gtatgtttttgctgcttg---tattttatgtttaagaaggcattcatgcag-tagtaagatatggatttattttgttcttctttcagCTGTCAATAAGGATGATCTGTTGCAAATGGTAAGATTTGGTGCGGAAATGGTATTCAGTTCCAAGGACAGCACAATTACAGATGAGGATATTGACCGTAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 13
gtatggattcaatgaataatttt-tcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
| || || | || | ||| || ||||| || || |||||| ||| | | | | | |||| || ||||| |||||| | | || ||||| |||||||| ||||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| | ||
--gttagttttttgcttcataaaatgttgcttgacaaatgaaaatt-caaacatcaattaatgttcttctgtcgtggtgttt---cagCTGTCAATAAGGATGAGCTATTGCAGATGGTCAGATTTGGTGCTGAAATGGTATTCAGCTCCAAGGATAGCACAATAACAGATGAAGATATTGACCGCAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 10
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattga--tttttatgtgc--agCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
|||||| || || | ||||| || ||| | || | | ||| | |||| | || | || | ||| || ||||| ||||| | || |||||||| | ||||| |||||||||||||||||||| ||||| || ||||| || |||||||| ||||| | ||
gtatggttttgatatttgccatttctatttgttttaagcattttttactagtttgatctggattgttctgacaacattctcatttattaagCTGTCAATAAGGATGATCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 13
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtgg----ttccattgat----ttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
|||||| | || | | ||| | ||| ||| | | || | | || || ||| ||| | |||| ||| ||| || ||||| ||||| | || |||||||| | ||||| |||||||||||||||||||| ||||| || ||||| || |||||||| ||||| | ||
gtatggttatgat-atttgcctttgctatttgtttcaagcatttttctttactagttggatatggattattctgacaacattcttttttgttaagCTGTCAATAAGGATGACCTTCTGCAAATGGTGCGGTTTGGTGCTGAAATGGTTTTCAGTTCTAAGGACAGCACAATAACTGATGAGGACATTGACCGTAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttc-cattgattttta-tgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
| | | || | || | | ||| || || ||| | || ||| || || | | |||||| || ||||| |||||||||||||||||||| |||| ||| ||||| ||||| |||||||| || ||||| ||||| ||||| |||||||||||||||||
-----------gtaagtgcgttatacagtgattgctttatgcattg-gttcatc-tctgacagaattggtatttatcttaactatgcagCTGTCAATAAGGATGAGTTGCTTCAAATGGTAAGATATGGTGCTGAGATGGTGTTCAGTTCTAAAGATAGCACAATCACAGACGAGGATATTGATAGAAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
||| | | || || | || | | | || | || | | | | || || || | || ||| | | |||| || ||||| |||||||||||||||||||| |||| ||| ||||||||||| || ||||| || ||||| |||||||| |||||||||||||| |||||
gtaagtgct---tgtgtactgaggctgttagatgtattggattttctcttacatatatatactgatttcttttctttgctt-tccagCTGTTAATAAGGATGAGTTGCTTCAAATGGTGAGATATGGTGCTGAAATGGTGTTTAGTTCTAAAGATAGCACAATTACGGATGAGGATATTGACAGAAT
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 13
----------------gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
|| | | | | | | || | || | || | | | | ||| ||| || ||| |||||| || || ||||||||| | || |||||||| || ||||| ||||||||||||||||| ||||||||||| |||||||| ||||| || || || || ||
gtgagccatttctgcattacaagcttgctttgcactatgacatgctaattca-tagaactagaaccactaacattttgttgtttttgtgggcttt---tgcagCTGTGAACAAAGATGAGCTACTGCAAATGGTCAGGTTTGGTGCTGAAATGGTTTTCAGCTCCAAGGATAGCACAATTACGGATGAAGACATAGACAGGATMapped 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|254331883|gb|GR846193.1|GR846193EST: TGCACTTGATGCTCTGGTGATTCAGCAAGGGCGATTGGCTGAGCAGAAGA CGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGG
genomic: TGCACTTGATGCTCTGGTGATTCAGCAAGGGCGATTGGCTGAGCAGAAGAgtatggattc ... ttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
tttttat CT-rich tract
attgatttttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggattcaatgaataatttttcttgtttctttgctgaaagttgtgtggattgtctaatgtggttccattgatttttatgtgcagCGGTAAATAAAGATGAGTTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAGGATATTGATAGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT