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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag

Basic information

species Selaginella moellendorffii
transcript EFJ35155
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os12g37360.1 (Oryza sativa), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
| ||||  |||| |||||||||||||||||||||||||| |||||||| || |||||||| || || || || ||||| |||||||||||||||||||||||   | |   | |  || |  |     |   |    ||  |  | ||  ||    |   | | ||  |   | |  |    |||   ||       ||| | |   
GCTGGCGTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACGCTCCTCCACATGCTCAAGGACGAGgt---tcgccacgaagtttctttccttttgtttta-attgagcagtcgattcatctgttggttgttaggtgatctgatgcggtttcgattgggttggattatgc---

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g15010.1 (Oryza sativa), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
| ||||| |||| |||||||||||||||||||||||||| |||||||| || |||||||| || || || || || || |||||||||||||||||||||||  || |     | |   |  | || |   ||   || ||||    |    |   |     | ||  | |||   | |                            
GCTGGCCTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTCAAGGACGAGgtaggtcgcccggatcgatcgatcgatcgagatt-tgtactgatttggttggttctgatttgtgttgggatttgggtgcag--------------------------

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os01g23620.1 (Oryza sativa), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttct--gaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag--------------------------
| | ||  |||| |||||||||||||||||||||||||| |||||||| || |||||||| || || || || || || |||||||||||||||||||||||       | ||  |||  ||  || |||  || | | |       || |   |||  | || ||  ||    |||  |    | |  |      |   || | |  |                          
GCTCGCGTCGCTGGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTCAAGGACGAGgtaccctcctacc--cttcgcccggatctctctcccctcccccacaaccccagatctgacccgatccatttccctttcgttggatctgatccgtctgtgtttgtgcgtgcgtgcgtgcgtgggcggatggtgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os06g12090.1 (Oryza sativa), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagct--taccctag--agctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
| ||||  || |||||||||||||||||||||||||||| |||||||| || |||||||| || || ||||| || ||  || ||||||||    | |||||    || | ||| |   |  ||||   | |   |     | |  |         | |    |    |||||   ||  || |    |  |||   || |          
GCTGGCGTCGATCGGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAAACCACCCTCTTCTACATGCTCTCACAAGAGgtata-ggctcccatcggatggcctaatcaaccgaagaaaatgccaaattttaaatttttaaacttaattttgagattgattttaagatattttcaacgta----------

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G038356_T01 (Zea mays), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtg---gtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
| ||||| | ||||| ||||||||||||||||||||||| |||||||| || |||||||| || || || || ||||| |||||||||||||||||||||||  |     ||  || |  | |    |      |||   | ||    | || || || |   |||    || |   |  |   | ||||  |  | |||          
GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccaccgtcccccgtctgcttccgg----tatcctatcctagatctgcttccctgg---gcttgcctgatccgtgct---tgtttcgatcgttgcag---------

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G181536_T01 (Zea mays), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttc-cagcttaccctagagctccatcgcgttctgaggccgcctc--tctcgcgcgctcttttggttttttttc-----tttttttcttttctcgcaattcttccag----
  |  ||  ||   ||||||||||||||||||||||||| |||||||| || |||||||| || || || || ||||| |||||||||||||||||||||||      | |  |  | |    | |    | | | | | | |  |  |  |   ||||||| ||      || |  |   |     |     |  | | |||   || | | |     
TGTCTCCCTGCGGCGGCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacacattctggcgccctggttttgcttgctaccacatgcagttgatgatttcttctcgcgtgccggccgggatagtgaacaacggtcgccctgctgtgtcgtcgttgtgctatgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G086636_T03 (Zea mays), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagt---ggtttccagcttac---------cctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
| ||||| | ||||| ||||||||||||||||| ||||| |||||||| || |||||||| || || || || ||||| |||||||||||||||||||||||  ||    ||  || || | |         |||||| ||  | |||   |    |   ||| ||     |   |||  | ||   |||||  |    | || || | ||   | |||
GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCGAAGATCCTCTTCCTCGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgttcgtcgccgtcccccgcctgcttcccgtatcctagatctg-accgcacccgattggatcctgtccatttctggcttccgtttgcctttctgatccgttcttgtctcgatcgctgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G122666_T01 (Zea mays), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctc--ttttggttttttttctttttttcttttctcgcaattcttccag
| ||||  |||| |||||||||||||||||||| ||||| |||||||| || |||||||| || || || || || || ||||||||||| |||||||||||      | || | ||    |    || || |  | ||  ||   |   |||     ||  ||   ||        || ||  | |  ||   | |   |  |  |||
GCTGGCATCGCTTGGGCTGTGGCAGAAGGAGGCTAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACCCTCCTCCACATGCTGAAGGACGAGgtcc----tctctacctccgacatccgccccttttccttgcgaattccagtcttatatgctttcgacttaacggggattcctgatctggttcgattgggttcatcgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA07G37070.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
  | ||  | ||||| || |||||||| || ||||| ||||||||||| |||||||| ||||| ||||| || || ||||| ||||||||||| |||||||||||     ||   |||| | |  |  |  |||   |    |     | | | |         | ||  ||||||||   |||||  ||    ||||||       
TCTAGCTTCCCTCGGTCTCTGGCAGAAAGAAGCCAAAATTCTCTTCCTTGGTCTCGATAATGCAGGGAAGACCACACTTCTTCACATGCTCAAAGACGAGgtgaggttcctctcccttaacatcaaaat--atcaaatc---aaatacctttttttat---tattattaatttttttttcattttt--ttcgatgcaattgcag---

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA17G03540.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctt------tttttcttttctcgcaattcttccag
  | ||  | ||||| || |||||||| || ||||| ||||||||||| |||||||| ||||| ||||| || || || || ||||||||||| |||||||||||     ||   |||| | |  |  |  |||   |       ||   | | |       | ||||  |||| | | ||      ||||  |||| |||      || |||
TCTAGCTTCCCTCGGTCTCTGGCAGAAAGAAGCCAAAATTCTCTTCCTCGGTCTCGATAATGCAGGGAAGACCACCCTCCTTCACATGCTCAAAGACGAGgtgaggttcctctcccttatcatcaaaat--atcaaatcaaatacccttttttatttttattttttttatttttatctattaaaaagttttaattttttcgatgcaattgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA09G04290.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttt--tttcttttctcgcaattc--ttccag
  | ||  | ||||| || |||||||| || ||||| ||||||||||| |||||||| ||||| || ||||| || || || ||||||||||| |||||||| |    |||||  ||  | ||    || | ||   || |    |    | |         |  |||  ||              ||   || | | ||||   || |||
TCTCGCTTCCCTCGGTCTCTGGCAGAAAGAAGCCAAAATTCTCTTCCTTGGTCTCGATAATGCCGGCAAAACCACCCTCCTTCACATGCTCAAAGACGAGgttacc--tttccctctctctcttacccttc-tcattttttttttcaatttttgaaaaaaattgattttcttaaaagaaaaaaaaattgaatttttgaaatttggttgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA15G15330.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattc--ttccag
  | ||  | ||||| || |||||||| || ||||| ||||||||||| |||||||| ||||| || ||||| || || || ||||||||||| |||||||| |      |||  ||   |    | |    ||   ||       |   | | |           |  |          ||   | |||    | ||||   || |||
TCTCGCTTCCCTCGGTCTCTGGCAGAAAGAAGCCAAAATTCTCTTCCTTGGTCTCGATAATGCCGGCAAAACCACCCTCCTTCACATGCTCAAAGACGAGgttaccttcctccctctcctctcttacccttctcatttttcttcttccaatttttgaaaaaaaaaataagaaaaaaaaaattgaattttt----gaaatttggttgcag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA19G41670.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
  | ||  |||||||||||||||||||||||||||||||  | ||| | || ||||| || || || ||||| ||  | || ||||||||||| || |||||   || |||||   ||    |     |||       | |    ||   | | |       | || |     ||  | ||                          
TCTAGCGTCGCTCGGGCTGTGGCAGAAGGAGGCCAAGATCTTATTCTTGGGCCTCGATAACGCTGGCAAAACTACCTTGCTTCACATGCTCAAAGATGAGgttt-tgttttccttttttttttttgtttccccaatcgttta---ccttttttttttattattattataagagttggttttgcag----------------------

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA10G28910.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag-
  ||||  |||| ||| ||||||||||||||||||||||  | ||| |||||||||| ||||| || || || ||  | || ||||||||||| ||||||||       ||||   || | ||  ||| |     || | | |     |       |     |||||| |||    | ||||| | |  ||     | |  | | || 
TCTGGCATCGCTTGGGTTGTGGCAGAAGGAGGCCAAGATCTTATTCTTAGGTCTCGATAATGCCGGAAAGACCACCTTGCTTCACATGCTCAAAGACGAGgt-------ttcccttttccgcttaagccctgaatcgctttaaatttactgggaatgt-tattcttttagttagaatccttttgtacaatttaaatattattacgaga

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GLYMA20G38360.1 (Glycine max), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag----
  ||||  |||| ||  ||||||||||||||||||||||  | ||| |||||||||| ||||| || || || ||  | || ||||||||||| ||||||||      || ||| | |   |    |||   |     ||||    | |||   || |   | |||   |   |   ||  |||   ||| || | |||  |    |    
TCTGGCATCGCTTGGATTGTGGCAGAAGGAGGCCAAGATCTTATTCTTAGGTCTCGATAATGCCGGAAAGACCACCTTGCTTCACATGCTCAAAGACGAGgtttccctttcccatccttttcc---gcttattt---ctctg----ctccttcttcacaaacgctta-agccctgaatcgatttaaatttactgggaatcttattcgttta

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: Vv07s0005g01330.t01 (Vitis vinifera), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagt---ggtttcc---agcttaccctagagctccatcgcgtt-ctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
  | ||| | |||||  |||||||||| |||||||||||  | || ||||||||||| ||||| || ||||| ||| | || |||||| | ||||| |||||| ||   | ||  |   || || || |     | |   | |   |  | |  |  |   |       | ||||   |     ||||  ||  | ||    |  || || |||
TCTCGCCTCCCTCGGCTTGTGGCAGAAAGAGGCCAAGATCTTGTTTCTAGGTCTCGATAATGCCGGAAAAACGACGTTGCTTCACATGTTGAAGGATGAGgtgtgttttgattctctacagttttccttttcttttcccggggaagcaaatggagttttgttgttttattgttttctgtaccaatcttgattgttctttggactgtttttacag

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: PP1S10_357V6.1 (Physcomitrella patens), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
  | || |   | ||||||||||||||||||||||| || || || || |||||||||||||| || || || || ||||| |||||||||||||| |||||   | |  ||    ||    |     |||  |  | ||     |                  |      ||||   || |        |  || |    ||    
TCTTGCGAGCATAGGGCTGTGGCAGAAGGAGGCCAAAATCCTGTTTCTGGGTCTCGACAATGCTGGCAAGACTACTCTTCTGCACATGCTCAAGGATGAGgt---tagactctcttttctgttttgattcctgcttggtcaatttcaattcgcggttgatagcgtaccaaattttcgcctctagaatcgataacgtatccgtt----

upper sequence: EFJ35155 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: PP1S44_58V6.1 (Physcomitrella patens), 5'ss of exon 1
GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggttt-ccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccag
  | || |   | ||  ||||||||||||||||||| ||  | ||||| ||||| |||||||| ||||| || || ||||| |||||||||||||| |||||       || |||| || |       |||| |    ||||     | |     | | ||     |   | |     | |   ||||| |  ||     |  |    
TCTTGCGAGCATAGGTTTGTGGCAGAAGGAGGCCAAAATCTTGTTCCTGGGTCTTGACAATGCCGGGAAGACGACACTTCTGCACATGCTCAAGGATGAGgtcctccccttgccagatttctt-----ctccttttttttcttttttcccacggtttgtgcctggctgccgctagaaatgtcggtttctgtcttcatggcttctg---

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 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 38

GTTGGCCACGCTCGGGCTGTGGCAGAAGGAGGCCAAGATTCTCTTCCTAGGTCTCGACAATGCGGGGAAAACAACGCTTCTCCACATGCTCAAGGACGAGgtgagtggtt ... attcttccagAGATTGGTACAGCACCAGCCCACCCAGTATCCAACATCCGAGGAGCTAAGCATCAACAAGATCAAATTCAAGGCCTTCGATCTGGGGGGTCACCAGATCG




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