Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
Basic information
species | Glycine max |
transcript | GLYMA17G12060.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 2
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttga-tgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
||||||| | ||| | |||||||||||||||||| ||| ||| ||| | || | | | || | || ||| | | |||||||| | ||||||||| || | ||| ||||||||||||||||| ||||| ||||| ||||||||||| ||||||||||||||||||||| | || |||||||| || ||||
gttagtagattattt---actttgggttagtagattgac-ttg-aaaatgttagtaagaggctac-aaatatgacatgttaatgata-ggcattttcccaaacgcagGCTGAGGTAGGCTTCCTTGGACAGCTTCACCACCCTAATCTTGTTAAACTTATTGGGTACTGCATTGAAGATGATCAGCGACTGCTTGTTTATGAATTTA
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S207_2V6.1 (Physcomitrella patens), 3'ss of exon 2
-----gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
| ||| ||||| | | || || || ||| | | | || || | | | || ||| || | | | | || | | ||||||||||||||| | |||||||| |||||||||||||| || || ||||| || ||||| || ||| || |||||||| | || || |||||||| || |
aagtagaaggtagggaatctttaaatat---ttcctactttagtgat-tcagctcttagttcaaacagaccggcacttacatag-------acgtcgttatcgtaatgcagGCTGAAGTTAATTTTCTTGGTCAGCTTCACCATCCGAATCTCGTGAAGCTCATTGGATATTGCTCCGAGGATGATCAACGCCTGCTGGTTTACGAATTCA
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S31_254V6.1 (Physcomitrella patens), 3'ss of exon 2
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagtt-gtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
| | || | |||| | ||| ||| | | | | || | | | ||| || || | | | || | ||||| ||||| ||||||| || |||||||||||||| |||||||||||||| ||||| || ||| || |||||||| | || || |||||||| || |
------gaggtgagagaaactctaaaaaagtatctataatttgagtagattcagctctgaatgcacactgattgacattcacactg-gtgccgtgatcatgtttcagGCCGAAGTGAACTTTCTCGGTCAGCTTCACCATCCGAACCTTGTGAAACTCATTGGATATTGCTCAGAGGATGATCAACGTCTCCTGGTTTACGAATTCAMapped 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|10232151|gb|BE801039.1|BE801039EST: AAAGCTTGAAGCCAGATGGCCTTCAAGGCCATAGAGAATGGGTG GCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTT
genomic: AAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaa ... gttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
ttttgtt CT-rich tract
attagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTTATTGGTTACTGCATTGAAGATGATCAGAGGCTTCTTGTTTACGAGTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG