Sequence
atgc intronic sequence ATGC exonic sequenceATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgcataaatttgg...
Basic information
species | Glycine max |
transcript | GLYMA08G16780.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g15870.4 (Oryza sativa), 5'ss of exon 5
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagtta--cactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgca---taaatttgg-
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GTTTATTACATCGATGACAGAGCATTTTTGTGCTGGTTGCAATAGATTACGACTATTGGCTGATGGCAACTTGAAAGTGTGCTTATTTGGCCCCTCAGAGgtatgctaaccagacactttgtgaaaccttgacttgt-----atttctgcaaattttcctatcatattttgggccaatatgt-caattttctactttggattccat
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g32230.1 (Oryza sativa), 5'ss of exon 5
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgca---taaatttgg
||||| ||||||||||| |||||||||||||||||||||||||||| ||| || | |||||||| ||||| ||||| || || ||||| || || |||||| | || | | | | | | | | | || ||| || || || || ||| || | || | || || | | |||
GTTTATTACATCGATGACACAGCATTTTTGTGCTGGTTGCAATAGATTACGATTATTGGCTGATGGCAACTTGAAAGTGTGCTTGTTTGGCCCGTCTGAGgtatgctaaccagacgttttgtgaatcc--tttgacttgtatttcagcaaatttctgtaccatattttgagccaatatgttaaattttctactttggattct-
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G135816_T01 (Zea mays), 5'ss of exon 4
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgcataaatttgg------
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ATTTATTACATCAATGACAGAGCATTTTTGTGCTGGCTGCAATAGATTACGGTTATTGGCTGATGGAAACCTCAAGGTGTGCTTATTTGGCCCCTCAGAGgtatgccgtactgctatggcattgattca-tgt-ttctgattttctttctcatgtaat--ttgctaacgtgttacactttctgggct--cattaatataaaagtat
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacact--caaatcatc--------aaagttcagtatattatgcattccacttaaatttggtgatg-gcaattgggctagaatctgtgatgttgcataaatttgg-------------------------------------------------------------------
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TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagta-actgttgattcaagt-ggctgcgaacatgtacaagtgtgcaataacttg-agtaccg-gtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G31955.3 (Arabidopsis thaliana), 5'ss of exon 4
------------------------ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacact--caaatcatc--------aaagttcagtatattatgcattccacttaaatttggtgatg-gcaattgggctagaatctgtgatgttgcataaatttgg-------------------------------------------------------------------
|| |||||||| ||||| || || || |||||||| |||||||||||| |||| || || ||||| ||||| ||||| || || ||||||||||||||||||| |||| | ||||| | ||| |||||| | | | |||| | | | | ||| ||| || || | || || | | |||| ||
CGATGGGCATTGCGGTTCTGTTTCTTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAgtttgcttgtttggtccttcagaggtaaagtacatttccaaatttttccatggctaaaagtcagta-actgttgattcaagt-ggctgcgaacatgtacaagtgtgcaataacttg-agtaccg-gtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0156g00170.t01 (Vitis vinifera), 5'ss of exon 6
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgcataaatttgg-------
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TTTTATTACATCAATGACTAAGAATTTTTGTGCTGGTTGCAATAGATTGCGACTTTTAGCTGATGGGAACTTCAAAGTATGCCTGTTTGGTCCGTCAGAGgtgaattatcttc--ttcactattgtacttcaattcatgc-tagaacttgaatatgcaatt--tattttgacttgattttttgttgtttcc--aattgggtgaaaccMapped 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|21595390|gb|BQ610465.1|BQ610465EST: GACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAG ATTAGCTTAAGAGATCCCCTGAGACGTGGTGCAGAGGATGATGAACTTAGA
genomic: GACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttaca ... tgtcttgcagATTAGCTTAAGAGATCCCCTGAGACGTGGTGCAGAGGATGATGAACTTAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacactcaaatcatcaaagttcagtatattatgcattccacttaaatttggtgatggcaattgggctagaatctgtgatgttgcataaatttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA