Sequence
atgc intronic sequence ATGC exonic sequence...tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
Basic information
species | Glycine max |
transcript | GLYMA20G37330.3 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g29540.1 (Oryza sativa), 3'ss of exon 9
tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
| | || | ||| || | | | || || | ||||| ||| | | | | ||||||| ||||||||||| | ||||| ||||||||| ||||||||||||||||| || ||||| || ||
-------------------------gtatctatctgctttcgagaaccaaagcctgaaagcttgtt---gttagctaacaa------attacatttacagGTCTGTGATTTTGGACTTTCACGTTTGAAGCACGGTACATTTTTGTCATCCAAATCCACTGCAGGGACT-------------------------------
upper sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 9
tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
| || | | | || | | | || ||| | || | || ||||| | | | | | | | | | | | | |||| ||||||||||| | ||||| |||||||||| ||||| || |||||||| || |||||||||||
--gtactgtgc---tctttttacctttacattcattcagtcataag-tatttatgagcgtgctgatcgattggctcaccaatga------tgtgaaatagGTTTGTGATTTTGGACTTTCACGCTTGAAGCACAGTACATTCTTATCATCCAAATCCACTGCTGGAACT-------------------------------
upper sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G175563_T01 (Zea mays), 3'ss of exon 9
tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
||| | | || || || | | | | | | | | || || || | | |||||| ||||| ||||| | || ||||||||||||| ||||||||||||||||| || || ||||||||
-------------------------gtgtgtgatcttgcccacgattaatatttggccaccaataatcattcacatcaatatatgcaa----tataacagGTTTGTGACTTTGGACTTTCGCGGTTGAAGCACAGTACATTTTTGTCATCCAAATCTACAGCTGGAACA-------------------------------
upper sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
lower sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 9
tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
| | || | |||||| | || | | || | || | || | | || | || | || ||| || ||| | |||| |||||||||||||||| || || |||||||| || ||||| || ||||| |||||||||||||||
-gtaggaagacttttttcttaagttgtcca-acgaatatacttgtttactctaatggtaaataaatagattttgtttt---tatcttactaaccttgtagGTCGGTGATTTTGGGTTGTCTCGCTTAAAGCACAATACTTTTTTATCCTCCAAATCAACTGCTGGAACG-------------------------------
upper sequence: GLYMA20G37330.3 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 9
tttttctaaacat--atttcttgaattatgtatacataa-attcctgagctatttta-tataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
| || || | | || | | |||| |||| | || | | | | || || || | | ||| | | | | |||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||||
---acccaagtattaagaacggaaaaacaacaaaaataatattctatcacagttgtggtttgacatacaatatcttcatggaccataattta-tgactttgcagGTATGTGATTTTGGGTTGTCACGCCTGAAGCACAACACATTTTTGTCATCCAAATCAACTGCTGGAACG-------------------------------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|33389731|gb|CA852938.1|CA852938EST: GAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAG GTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCC
genomic: GAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAGgtatatgatt ... ctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
ccactctttct CT-rich tract
tttatataatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttctaaacatatttcttgaattatgtatacataaattcctgagctattttatataatctaggctaagttagttaaaagtaagccactctttctacagGTATGTGATTTTGGGTTGTCACGGTTGAAGCACAACACATTTTTGTCATCCAAGTCAACTGCTGGAACGGTGAGAATATGAGAAAGTCTTTGTTATTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA