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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG

Basic information

species Zea mays
transcript GRMZM2G359234_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62020.1 (Oryza sativa), 3'ss of exon 3
---taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
       | |   || |     |    | || |      | | |  | ||||  |  | |    | ||   ||   | |||| |||||     || |   |||||||| ||||| || ||||||||||||||||| ||||| ||||| || || ||||| |||||||| |||||||||||||| |||
ttgctgcaatactgtagttcgtattgtagcattatgtgacttcaacatcttagtaactatagctattctacga---tcttttgctaactgacttattatgcagGTGCGCATTGCTCGCATTTTCAATACATATGGCCCTCGAATGTGTCTAGATGATGGCCGTGTGGTTAGCAATTTTGTTGCCCAG

upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G19640.1 (Glycine max), 3'ss of exon 3
-----taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
     || || | |  |   | | ||   || | |  | || | |||     |||| ||||  |          | |  |  | |         || ||| | |||| |||||||| || ||||||||||||||||| || || |||||  | || ||||| ||||| || ||||||||||||||||||
aaaattagtagt-taatcacacataagtgaa-atttaaactacctatgg---taaattttgcaaattaaatgctattgagactgatctggtgtgatggtttatagGTTCGTATTGCTCGAATTTTCAATACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTCGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G05260.1 (Glycine max), 3'ss of exon 3
-----taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
      |||| |       |   ||    ||   |  | || |||||      ||| | ||  |        | | |  |    | |    |  || ||| | |||| |||||||| || |||||||| |||||||| || || |||||  | || ||||| ||||| || ||||||||||||||||||
aaaacaaatagttaatcatagataagtggaat--ttaaactacttatgga---aaattctgcaaattacatgttattgagaccgatttggtttgatggtttatagGTTCGTATTGCTCGAATTTTCAACACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTTGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0040g02710.t01 (Vitis vinifera), 3'ss of exon 4
taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgtt--ttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
 |||   |       ||||     |          |   |||   | |||| |    | |      | |  |   ||  | ||| |  |   | |||  ||||| ||||| || || ||||||||||||||||| |||||||||||  | || ||||| |||||||| ||||||||||||||||||
-aatgggccatccttataacttctactttactgtatagatatctccataaagtggactgtagacaatagtttggattaatcactgaattttct-gttcgcagGTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG

upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaac-ctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
                                          ||  | ||  ||  ||   |  |    ||    |     | |   |  || ||| ||||||| | || || ||||||||||| |||||||||||| | |||||||| |||||||| || || |||||||| || || || |||
-----------------------------------------gtaagtgaactttccttgaaagcctaacaaaggttgacggtgatgttccatcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG

upper sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
lower sequence: EFJ30517 (Selaginella moellendorffii), 3'ss of exon 4
taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
                         |         |||||   ||| ||| |   |||  ||    | | | |||||  | |          ||| ||||||| | || || ||||||||||| |||||||||||| | |||||||| |||||||| || || |||||||| || || || |||
-----------------------gtaagtgaactttccttgaaagcctaacaaaggttgacagcgatagcaaatgttccatt----------gtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaaaatttgttatcactccttgaatatgttttactaacctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
                                 tactaac  putative branch site (score: 0)
                        aatatgttttactaa  TA-rich tract