Sequence
atgc intronic sequence ATGC exonic sequencegtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaacatgataacaaaggcacacacttactgctttctctgtttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os09g33500.1 (Oryza sativa), 3'ss of exon 5
--------------------gtgcacattaaaatcctg---aaac-cattgctttcaggctgtgtaaacatgataacaaaggcacacactta-ctgctttctctgtttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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gtgattctaaaaaccttcttacctacctttcttttctgcccattcacatttttttcacactaaggtatcatgcgttcatgttctagtacttatctgcttcagttctgcttttccagGCTGGGTTTACTGGCATTGCTGTTGGTGCAGCGTATCAAGGTCTTCGACCTGTTGTAGAGTTCATGACATTCAATTTCTCAATGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G36540.3 (Glycine max), 3'ss of exon 5
---gtgcacattaaaatcctgaaaccattgctttcagg--ctgtgtaaacatgataacaaaggcacacacttac-tgctttctctgtttaccct----cagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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gcttctcactttaaaattgataggaaaataagaacaggatttatttatatttggttgcatctgt-tggattgacataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 5
---gtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaaca--tgataacaaaggcacacacttactgctttctctgtttaccct----cagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 5
gtgcacattaaaatcctgaaaccattgctttcaggc---tgtgtaaacatgataacaaaggcacacactta----ctgctttctctgtttac---cctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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ttttactttggcttagtaagtatat-gcagcaaggtgtttttcttaacttgtcattgcgggaatattctcagcatctgatttctggggatatgtattgtagGCGGGCTTTGCCGGAATTGGAGTTGGTGCTGCTTACCATGGTCTTAAGCCTATCATAGAATTTATGACATTTAATTTCTCCTTGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv01s0146g00310.t01 (Vitis vinifera), 3'ss of exon 6
-------------------gtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaacatgataacaaaggcacacacttact--------------gctttct---------ctgtt---taccct-cagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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gtaagttctgttacatgacttgcccatataagtggataagtttttgctcct---ttttgtaaattttgtgattaatccaaaaattttcttattattagtcgttactttctacaacatgtttgttacatattttgcagGCTGGTTTTACTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTTAAGCCTGTTGTAGAGTTCATGACATTTAATTTCTCTATGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ19158 (Selaginella moellendorffii), 3'ss of exon 3
gtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaacatgataacaaaggcacacacttactgctttctctgtttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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--------------------gtgagtgcttt--gattttatcaagttgcgaagatcgtaatgaatggactggactt----------ctcagGCTGGTTTTACTGGCATCGGTGTTGGAGCGGCGTTTCAAGGCCTCAAGCCTATCGTGGAGTTCATGACGTTCAACTTTGCTATGCAG
upper sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ13549 (Selaginella moellendorffii), 3'ss of exon 4
gtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaacatgataacaaaggcacacacttactgctttctctgtttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
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--------------------gtgagtgcttt--gattttatcaa----gttgcgaaggt-----cgtaatgaatggactggac-ttctcagGCTGGTTTTACTGGCATCGGTGTTGGAGCGGCGTTTCAAGGCCTCAAGCCTATCGTGGAGTTCATGACGTTCAACTTTGCTATGCAGMapped 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|78122124|gb|DV540508.1|DV540508EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
EST:
gi|211069303|gb|FL193602.1|FL193602EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
EST:
gi|32940983|gb|CF045802.1|CF045802EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTTGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
EST:
gi|32799904|gb|CD952140.1|CD952140EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
EST:
gi|211088145|gb|FL307530.1|FL307530EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
EST:
gi|91057168|gb|EB167586.1|EB167586EST: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAG GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
genomic: TGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCT
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:
49 (upstream exon),
49 (downstream exon)
Score:
162ATTTCTAAGGGCTTGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
244ATTTCTAAGGGCTTGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
158ATTTCTAAGGGCTTGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
397ATTTCTAAGGGCTTGCTTGATAGGTATGGTCCTGATAGGGTTCTTGACACGCCTATCACAGAGgtgcacatta ... ttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtaaacatgataacaaaggcacacacttactgctttctctgtttaccctcagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
cacttac putative branch site (score: 397)
ctgctttctctgttta CT-rich tract
ataacaaa TA-rich tract