Sequence
atgc intronic sequence ATGC exonic sequenceAAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca...
Basic information
species | Glycine max |
transcript | GLYMA17G29670.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os02g07880.1 (Oryza sativa), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattt-----tactcat-tcccttcagatgtgtgttattttttttgctc---atgttgaatcataaaacaattttttttcatgtttcccatgagtggca
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TAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGGTCGTATAGAGCTATTGATGTTACCTATGCACTCTTGAAGAACATAACGgtatgctctacatcggtaaatggacacatgctttcggccctttgccaattgacatgtcctctatgtgtggacacttaccaatgtactttactgttgtgtag--------
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os06g48700.1 (Oryza sativa), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatg---tgacaaattt-----tactcattcccttcagatgtgtgttattttttttgctcatgttgaa---tcataaaacaattttttttcatgtttcccatgagtggca---------------
||||||||| || ||| ||||||||||||||||||||||||||||||| | | | | ||| ||| || | | | | || | | || || || | || | || | | || | | | | | | | ||| ||| | ||| || || |||| | || | | || | | | |
AAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCTAAAGCTTACAGGGCTGTTGACACAAGCTTTGAACTGCTTAAGAATATTTCGgtgagctctggtatacttgtacatgcaaaagaaggggaaacatacatgttttatttccttaatggccaattttcgcaaaaatctgcattcttgggatttgtctaattaataatgaaatttttgcag
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os06g45110.1 (Oryza sativa), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataa-aacaattttttttcatgtttcccatgagtggca-----
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TAATTGGTCAGTTACACATGTTGATTGGTCTGAGGGAAAATGGCATCCGAGGTCATATAGAGCTGCAGATGTCACCTACGATCTCTTAAAGAATATAACAgtatgt------ttttgctttgt---------tgtatgtc-ttttttttccccata--aactcataacagtacgttctcatgctaatttacattactgttgtgcag
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os08g12890.1 (Oryza sativa), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattc-ccttcagatgtgtgttattt---tttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
|||||||| || || ||||||||||||||||| ||||| |||||||| || || ||| ||||| |||| | |||||| || || | || || || ||||| | | |||| || || ||| | || || | |||| | || |||| | | | | | || | ||
TAATTGGTCTGTGACTTATGTTGATTGGTCTGAGGGAAAGTGGCATCCCAGGTCTTTCCGAGCTAAGGATGTAACTTATGAACTCCTCAAGAATATGACAgtacgcttaacctttttctgggtcatcttaatattctctttggatggacttttattttccttt--tcatgggatacctctaacttcagtctttgctgcag----
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G103805_T03 (Zea mays), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttat--tttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
|||||||| || ||| |||| ||||||||||| ||||||||||||||||| |||| || ||| ||| | || ||| | || |||| ||||| |||||||| || | ||| | | | | || | | ||| || || || ||| | | | | ||
TAATTGGTCTGTTACACATGTGGATTGGTCTGAGGGAAAATGGCATCCAAGGTCATATAGCGCTGATGATGTCACCTATGATCTCTTGAAGAACATTACAgtatgtttcatggat-acttaatttttccttatctatcatatgattgttatgtgcatacgctgatgtgcatgagcgtacaggcag-----------------
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G103805_T04 (Zea mays), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaa----attttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
|||||||| || ||| |||| ||||||||||| ||||||||||||||||| |||| || ||| ||| | || ||| | || |||| ||||| |||||||| || | || | | | | || | || | | || | ||| | | ||| | | |
TAATTGGTCTGTTACACATGTGGATTGGTCTGAGGGAAAATGGCATCCAAGGTCATATAGCGCTGATGATGTCACCTATGATCTCTTGAAGAACATTACAgtatgtttcatggatacttaatttttccttatctatcatatgat-tgttatgtgcatacgctgatgtgcatgagcgtacag-----------------------
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G138505_T01 (Zea mays), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattccct-tcagatgtgtgttattttttttg--ctcatgttgaatc--ataaaacaattttttttcatgtttcccatgagtggca
|| ||||| || || ||||||||||||| || ||||||||||||||||| |||| |||||| ||| |||| |||||| || | || |||||| | ||| | | || || | || | | | | | ||| | || || || | | || || | || || | || |
TAACTGGTCAGTGACTCATGTTGATTGGTCCGAGGGAAAATGGCATCCAAGGTCATATAGAGCTGCAGATGTTACATATCAACTCTTAAAGAACATAACGgtacaccttta-tcttgctaaggccttgtttggttattccaattccatgtggattcgagtgtattggaatgaattgggatgaattttgacttgctattgat----
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G061465_T01 (Zea mays), 5'ss of exon 8
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
|||||||| || ||| |||| |||||||| || ||||||||||||||||| |||| || ||| ||| | |||||| | || |||| || || |||||||| | | | | ||| | | || || | | | | || || ||| || | | ||| ||
CAATTGGTCTGTTACACATGTGGATTGGTCCGAGGGAAAATGGCATCCAAGGTCATATAGTGCTGACGATGTCACTTATGATCTCTTGAAGAATATTACAgtatgtttcctagctgcttaatttgttct---ttcgtaccatatatgatctttattatgtg-catgcgctgatgtgcatcaccgttgtgcag--------
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G124151_T01 (Zea mays), 5'ss of exon 9
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttg--ctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
|| ||||| || || ||||||||||||| || ||||||||||||||||| |||| |||||| ||| |||| ||| || || | || |||||| | ||||| || ||| | || | | || || | | |||| | | | |||| ||| | ||| | || | |
TAACTGGTCAGTGACTCATGTTGATTGGTCCGAGGGAAAATGGCATCCAAGGTCATATAGAGCTGCAGATGTTACCTATGAACTCTTAAAGAACATAACGgtatgccttaatctttctaaagggaaaacatacattcccacttgttctcaactcctcgttgtgtttcatactgatttgtttgc---tttacattgtgcag--
upper sequence: GLYMA17G29670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G057567_T02 (Zea mays), 5'ss of exon 8
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca-
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TAATTGGTCTGTAACCCATGTTGACTGGTCTGAAGGGAAGTGGCATCCAAAAGCTTACCGGGCAAAGCACGTTAATTTGGAGCTTCTGAAGAATATAGCAgtatgtgttcgcctgctcatattacgtctattttcctggtggttattt-gcctacg--gcacccttttctagtcgtaacccctttttgatctgtgctgcagMapped 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|13789757|gb|BG652348.1|BG652348EST: GATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCA TATATTGACGAAAGTCCACATTTTACAAGTGATGCAAAG
genomic: GATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgaca ... ttcgctgcagTATATTGACGAAAGTCCACATTTTACAAGTGATGCAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATTGGTCGGTAACATATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGATCATTCAGAGCTCGGGATATTACTTATCAAGTCATGAAAAACATAGCAgtatgtgacaaattttactcattcccttcagatgtgtgttattttttttgctcatgttgaatcataaaacaattttttttcatgtttcccatgagtggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcccttc