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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgatagtaatcctatttattgaaacaaatgcttttgatttaattattgcaagcagtgattttaaatatgtaaattatatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCTTATGCAGGCGCTTGCAGTGCT

Basic information

species Zea mays
transcript GRMZM2G463904_T03
intron # 10
splice site 3'
intron type U2

Mapped 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|71447930|gb|DR828980.1|DR828980
EST:     CTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTT                         ATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT
genomic: CTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT
EST: gi|71420953|gb|DR805250.1|DR805250
EST:     TTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGNCA-GTGGCTACGTT                         ATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT
genomic: TTACTGGAGAAATCCCGTTCAATATTGGTTTCCTG-CAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT
EST: gi|71447931|gb|DR828981.1|DR828981
EST:     CTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTT                         ATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT
genomic: CTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCT

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 3 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 158

AGATTTGTCAAACAATCATCTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCTTATGCAGGCGCTTGCAGTGCT


Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 36

AGATTTGTCAAACAATCATCTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCTTATGCAGGCGCTTGCAGTGCT


Block sizes: 44 (upstream exon), 47 (downstream exon)
Score: 25

AGATTTGTCAAACAATCATCTTACTGGAGAAATCCCGTTCAATATTGGTTTCCTGCAAGTGGCTACGTTgtatgtgata ... tatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCTTATGCAGGCGCTTGCAGTGCT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgatttaattattgcaagcagtgattttaaatatgtaaattatatatatcagATCTTTGCAAGGGAACAAGTTCTCTGGTCCTATACCATCAGTGATTGGCCTTATGCAGGCGCTTGCAGTGCT
     atttaat  putative branch site (score: 25)
                  aagcagtgattttaaa  TA-rich tract