Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccccttaattttgaatctgtgaaaggttcggtggtgtaggtggctgtgactgtggctgatgaaggagagccactgtgtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG

Basic information

species Zea mays
transcript GRMZM2G468855_T01
intron # 2
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|26558347|gb|CA830582.1|CA830582
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGCGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTCCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|148947888|gb|EC893382.2|EC893382
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|71433713|gb|DR814763.1|DR814763
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|148963558|gb|EE014584.2|EE014584
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|88753040|gb|DY537181.1|DY537181
EST:     TAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGT
genomic: TAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCC-TGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGT
EST: gi|89249859|gb|DY621645.1|DY621645
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|71439323|gb|DR820373.1|DR820373
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|93284169|gb|EB676433.1|EB676433
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|31356128|gb|CD440485.1|CD440485
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGCGGTTCGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTCCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|91052468|gb|EB162886.1|EB162886
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|71307392|gb|DR789895.1|DR789895
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|149082993|gb|EE172232.2|EE172232
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|22545715|gb|BU098074.1|BU098074
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGCGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTCCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|89761516|gb|DY689501.1|DY689501
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|148978723|gb|EE026281.2|EE026281
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|71419697|gb|DR804867.1|DR804867
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
EST: gi|71760118|gb|DR958055.1|DR958055
EST:     CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTG                         GTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT
genomic: CTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTT

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: 190

CTCCGGCGTCGTTTTCCATCAGCTGGAGGTCACCGACGCCCAGAGCATTGCTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG


Block sizes: 44 (upstream exon), 45 (downstream exon)
Score: 33

CTCCGGCGTCGTTTTCCATCAGCTGGAGGTCACCGACGCCCAGAGCATTGCTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG


Block sizes: 30 (upstream exon), 49 (downstream exon)
Score: 18

CTCCGGCGTCGTTTTCCATCAGCTGGAGGTCACCGACGCCCAGAGCATTGCTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 426

CTCCGGCGTCGTTTTCCATCAGCTGGAGGTCACCGACGCCCAGAGCATTGCTAGATTGGCCGGTTTCCTGAAGGCGTGGTTTGGGAAGCTAGACATCCTGgtgagtcccc ... gtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtaggtggctgtgactgtggctgatgaaggagagccactgtgtcttactagGTAAACAATGCCGCTATCGGTGGGGTTCAGTCACTTCCCGTTGAAAATGTTGGCGAAAAG
                      ggctgat  putative branch site (score: 426)
                                              tcttact  putative PPT