Sequence
atgc intronic sequence ATGC exonic sequencegttagttgtctttagtatgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgcttacatatccttgtagactggaactgaatgaaatgtttctggtgtactctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G103897_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g45100.1 (Oryza sativa), 3'ss of exon 10
--------------------------------------gttagttgtctttagt--atgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgcttacatatccttgtagactggaactgaatgaaatgtttctggtgtactct-gacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
| || | | || | | ||||| ||| |||| | | |||| | || || ||||||||| | ||||| | || |||| || | || |||| ||| |||||||||||||||||||||| ||||||| |||||||||||||| || || |||
gttagtgtttctttcctcatatacagttacttattcttgaaagcattgtataatcattagtcaaagcaaacaaat--gacacaaaagtgggagc-tcatttacatatcatgccagactctga--gactgaactgctactactgtaatcttgacagGAGTTGGCAATGATCCAAGAGAAGACCGATACTTCAGTATACCTAAGCAA
upper sequence: GRMZM2G103897_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA04G07870.1 (Glycine max), 3'ss of exon 11
gttagttgtctttagtatgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgcttacatatccttgtagactggaactgaatgaaatgtttctggtgtactctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
|| | | | | | || ||| | | || | | || | | | || | | || | | | | |||| | | | |||||||||| |||||||| |||||||||| || ||||| ||||||||||||
-----------ccagattcataatatgccatgccctcattactattttgttcatat--ttttctaaacaatgaaaatcacaatcca-tattctctgtctgttcttcctgttcagGAGTTGGGAATGATCCCAGAGAAGATCGTTATTTCAGCATCCCAAAACAA
upper sequence: GRMZM2G103897_T02 (Zea mays), 3'ss of exon 10
lower sequence: PP1S488_10V6.1 (Physcomitrella patens), 3'ss of exon 12
gttagttgtctttagtatgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgcttacatatcct-tgtagactggaactgaatgaaatgtttctggtgtact-ctgac---agGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
| | | || ||| | | || ||||| | | | | | || | || | ||| || | |||| ||| || ||||||||||| ||||||||||| |||||||| || ||||| ||
-------------------agattttcacacccctttgtccttgtattgctaacatcttttacacgacttgtacatcttctaagcaatctgtttgctactgatgcatcactgattgtagGCGTAGGCAATGATCCTCGAGAAGATCGCTACTTCAGCATTCCAAAGCAG
upper sequence: GRMZM2G103897_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ18278 (Selaginella moellendorffii), 3'ss of exon 11
gttagttgtctttagtatgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgct-tacatatccttgtagactggaactgaatgaaatgtttctggtgtactctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
|| || | | | | | | | | | ||| | | | || | ||| |||| ||||| |||||||||||||||||||| |||||||| || || |||||
------------------------------------------------------gtaactacatttttacgttcaagtttaagaagcttgacacgc--cgagtttttgctg-cagGGGTTGGGAATGATCCACGAGAAGATCGCTACTTCAGCATTCCCAAACAG
upper sequence: GRMZM2G103897_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ22017 (Selaginella moellendorffii), 3'ss of exon 11
gttagttgtctttagtatgaccaaaggaaataaattcaaaaaaaaattacaagtgtcgct-tacatatccttgtagactggaactgaatgaaatgtttctggtgtactctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
|| || | | | | | | || | | ||| | | | || | ||| |||| ||||| |||||||||||||||||||| |||||||| || || |||||
------------------------------------------------------gtaactacatttttacgttcaagttgaagaagcttgacacgc--cgagtttttgctg-cagGGGTTGGGAATGATCCACGAGAAGATCGCTACTTCAGCATTCCCAAACAGMapped 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|76283830|gb|DV023398.1|DV023398EST: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAG GAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
genomic: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
EST:
gi|32909346|gb|CF014158.1|CF014158EST: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAG GAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGGTATCCCAAAACAA
genomic: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAG-TATCCCAAAACAA
EST:
gi|110957435|gb|EE177487.1|EE177487EST: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAG GAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
genomic: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
EST:
gi|148999289|gb|EE036219.2|EE036219EST: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAG GAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
genomic: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
EST:
gi|13149731|gb|BG320053.1|BG320053EST: ATTGGATTATGACCCAGCTTCGAATTWTGGCAATTGGACATWTGGVGCRG GAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
genomic: ATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
45 (upstream exon),
36 (downstream exon)
Score:
2GATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
Block sizes:
44 (upstream exon),
48 (downstream exon)
Score:
16GATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
Block sizes:
49 (upstream exon),
39 (downstream exon)
Score:
9GATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
Block sizes:
43 (upstream exon),
39 (downstream exon)
Score:
10GATATGGGTGTTGATTGGCGAATGGGAGCCGAATGGTTCGAGACATGCTTATTGGATTATGACCCAGCTTCGAATTATGGCAATTGGACATATGGAGCAGgttagttgtc ... actctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacatatccttgtagactggaactgaatgaaatgtttctggtgtactctgacagGAGTTGGCAATGATCCACGAGAAGATCGATACTTCAGTATCCCAAAACAA
cgcttac putative branch site (score: 10)
aatgaaat TA-rich tract