Sequence
atgc intronic sequence ATGC exonic sequencegcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
Basic information
species | Physcomitrella patens |
transcript | PP1S102_187V6.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os08g02300.1 (Oryza sativa), 3'ss of exon 1
------gcatgaacatgctcatttgaaggacatatttg------agtttcgaatttc----tcccacatagagtttttgttttgggattggtgga-------tatcttgatactgatg---atattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| || | | | || | | | | || |||||| | ||| || || | ||| || | || || || || || || | ||| | | | | | | ||| | || | ||| ||| ||| ||| |||| |||||||||||||||||||||||||| ||||| || || |||| | | || | || || ||
gtagctaagctagtattcctcatcatataacctttctcctctccaattctcaatttctagctaccaaatcgatgatggatttatcaatcaatcgagctaagctagctaagtaatggtgtgtgtgcaaaatatatattgtggttgcagAGAGGTGTAAGATTGGG----TCAGGGCCG-----CAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACAGGGCGACGGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os06g04090.1 (Oryza sativa), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgg--gattggtgg-atatcttgatactgatgatattcaatttttgtggcgatgt---caggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
|| |||| | |||| | | | || | |||| || || | ||||| || || | | | | | ||| | |||||||| ||| ||| ||| || | |||||||||||||||||||||||||| ||||| || || |||| | | || || || || ||
---------------------------------gtacgtaattaagcacacacacatcgatcaattcgatcgatttttgacatgttttgatcaatgtggcatgtgtgtatcatacatacatatgcagAGAGGTGCAGGATTGGG----TCAGGGCCG-----CAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACCGGGCAACGGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os02g42970.1 (Oryza sativa), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtt--tcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| || | || |||| ||||| | | | || | |||| ||||| | ||| || ||| | | || ||| | |||| ||| || || ||||| |||| |||||||||||||||||||||||| || || || || || || | ||| | || || ||||| |
--------------gtaattagcatgcatgcaagttgatcgaagaatcaaaaaaatcaaagttaggtttgcgattga-------------attga--gcatccaacatgtacaaatattgcagAGAAGTGCAAGATTGG---------CATGGAAGAACAGAATGACTGGTACTTCTTCAGCCACAAAGACAAAAAGTACCCGACGGGCACCCGCACCAACCGGGCCACGGG-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os06g01480.1 (Oryza sativa), 3'ss of exon 3
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattg-gtggatatc--ttgatactgatgatattca-atttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| | |||| | || || || || | | || || | | || || | ||| | | || | || ||| || | ||| || | | ||| || |||| | || || || |||| || ||||||||||||||||||||||| ||||| || || |||| | | ||
----gtcagtactcagt-acagtacgtacatgcatg-catatgatagatgtgtacaatattcgtgtgctaattaagccagcaataattaactgggagtataaccatgcatgcagAGCGTTGCCGGATCAATGGCGGGTCGGCGGCG--------GAGGAGCAGAACGAATGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACCAA-------------
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os06g33940.1 (Oryza sativa), 3'ss of exon 2
--------gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcg-atgt-caggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| | ||| | | || | | | | | || | | | || | || | | | | || |||| | || ||||| || | ||| |||||||| |||||| || |||| || ||||||||||||||||||||||| ||||| || || |||| | | || || || || |
gtaaaattgaaattgagcaatcaatcagtcagctcatctagctagccggccggagctagcaagcatgcaacagtgagatttagctgaagtttaaaca-tggtgattaatatttcatgtggtatatatacagATCGGTGCAGGAT-AGGGACGGGGCC--------TCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACCGGGCGACGAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os02g15340.1 (Oryza sativa), 3'ss of exon 2
---------------------------------------------------gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgat-gatattca-atttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| | ||| | | || | | | | || | | || ||| || || | | | | ||| ||| ||| ||| |||| | || | || ||| |||| ||| ||||||||| ||| || | | ||| || ||||||||||||||||||||||| ||||| || || |||| | | || || ||||| |
gtataaacacatatgcttgctaattaattaactagcacttctttagaaaatgaacaaacttacaaatgtatatgttgtgttggtgcttaatttttttcacaaaatcacctaacgattttaaatttaactttatgaatatattgattaacatatatatggttgcattgatg-cagATCGATGCAGGATTGGG---------ACGGGGGCGCAGGAGGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACCAACCGCGCCACGGT-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G069047_T01 (Zea mays), 3'ss of exon 1
--------------------------------------------------gcatgaa--catgctcatttga--aggacatatttgagtttcgaat--ttctcccacat-agagtttttgttttgggattggtggatatct-tgatactgatgatattcaatttttgtggcgatgtcaggggtatgcag-
|||| | | || |||| || | | | || | || | | |||| || | || ||| | | || || ||||| || || | |||| | | |||||| || | | || | | ||||| |||||||||||||||||||||||||| ||||| || || |||| || | || || || || ||
gtacggtatacttaccaccatataccttccatctccgaggtccgagcaaagcatcagctcgtgatcataggatcggatcggagctggtgacctgatggtcatgtcacacgagcatgaacgtgagctgatcatcgtacgtccatggcgctgat--catcggggttagttatcgattctgcgtgcatgcagAGAGATGCAAGATCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCTACGGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G171395_T01 (Zea mays), 3'ss of exon 1
------------------gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggt--atgcag-
||| | || ||| ||| | |||| || | | | |||| | | || | | || | ||| | || || | || | | | | | | | |||||| || | | || | | ||||| |||||||||||||||||||||||||| ||||| || || |||| || | || || ||||||||
gtagtactacgctgttacgcacgcacgcgcttgcttgctg--catacatgtctatgcggccatgcatacat---gcctctgccgtccgtctgcc---ctccccgatgcatat-atggccgatcctgatcgtcgagccggtgaccgatgcagAGAAGTGCCGCATCGGTTCGGGCCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACCGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G092465_T03 (Zea mays), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
|| | || ||||||| || | | | | || | | || | | | | | | | | || | || || || | | | | | | || | | ||||| |||||||||||||||||||||||||| ||||| || || |||| || | || || ||||| ||
----------------------atcaaacgcga---tcgaattcatcgcgcgctaa-ctactggctaacaactgctactactactaaagccgctagc-tccattccatgcatggaaatcgcgcgcagAGAAATGCAAGA---TCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACGGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G091490_T01 (Zea mays), 3'ss of exon 1
gcatgaacatgctcatttga-aggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatatt-caatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| ||| | ||| | |||| | | | | | || | ||| | | | | || || | | ||| ||| | | | || | ||| ||| | ||||| |||| || | |||| |||||||||||||||||||||||||| | ||| || || |||| || | || || ||
gtatgcatccatgcatatagtaggatctgtgtacgagacacatgcatgat-catcgtctatctcattgcttgcgcatgcaatgcatgaaacttacatggcgacgaccggactgacccctgcagACAAGTGCCGCGTCGGGT-CGTCGTCA--GGCCCTCAGAACGACTGGTACTTCTTCAGCCACAAGGACAGGAAGTACCCGACGGGGACGCGCACCAACCGCGC-------
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G041746_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------gcatgaacatgctcatttgaaggacatatttga-gtttcgaatttctcccacatagagtttttgttttgggattggtg-gatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACG-TCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACC-GTGCAAATCGAGCCACCGCC
|| | || | | | | || ||| ||| | | | || || ||| ||| || | |||| || | || || || || || | ||||| || | | |||| | | | | | | ||||| | |||| || ||||||||||||||||||||||| ||||| || || ||||||| | | || || ||||| |
gtaagtaaaatacatgtatgtatatgtcattttgtgtgcaaacagctagcaaacatatacttgttatatatatacctgca-gcgagctagatctgatgttgctagctagctagacctaattaatttttttgcaaatcaaagagataactc-acacaaataatcttttatatatgtggaacatgcatgcatg-gcagAAAGGTGCAGGATAGGCACCGGGCATCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCG-ACGGGAACAAGGACGAACCGCGCCACGAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G315140_T01 (Zea mays), 3'ss of exon 2
gcatgaa-catgctcattt--gaaggacatatttgagtt--tcgaatttctcccacataga-----gtttttgttttgggattggtggatatct-tgatactgatgatattcaatttttgtggcg---atgtcaggggtatgcagGATCGGG-GACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
||| ||| | |||| ||| | || |||| | || || | | | | | | | | | || | || | | | ||| | || |||||| | | | || | |||| | | | | | || || |||| || ||||||||||||||||||||||| ||||| || || || | || | || || || ||| |
gcaagaaataaatacattccgaaagcaagtagttgatgcaatggagttggtagtagacaattacatgcatatatacacgtgctgctaattaaatattagactcacaatgatcaattggcatcacacatgcatttggaatgggcagAGAAGTGCAAGATTGGGATGGAGGAGCAGAACGATTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGCACTCGCACCAACCGGGCGACCAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G104074_T01 (Zea mays), 3'ss of exon 2
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattg-gtggatatcttgatactgatgatattcaatttttgtgg-cgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACC-GTGCAAATCGAGCCACCGCC
||| || |||| ||| | | | || | ||| || | |||| | || ||| | | | | || || ||||||| | ||| ||| ||||| || || ||| | || | || ||||||||||||||||||||||| ||||| || || ||||||| | | || || ||||| |
---------------tttaaaa---atatatgaatctaaag-----ccaaaatatctcttataatttgaaaagaagtatataggtaactcataggaaggttatatatttgtggacaatggcagAAAGATGCAAAATAGG---------CACTGGGCCTCAAAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCA-ACGGGAACGAGAACGAACCGTGCCACGAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G354151_T01 (Zea mays), 3'ss of exon 3
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| | || || | | || ||| | ||| | | | | || | ||| || || ||| ||| || ||| ||| ||| | |||| ||||||| || || || |||| || ||||||||||||||||||||||| ||||| || || || | ||| |||| || || ||| |
------------------gtaagaagtacattaattctgaaacaagtatatatata---catacatagctgctgctaaata----gacac--atg-catt---ttggaatgggcatg-cagAGAAGTGCAAGATCGGG---------ACGGAGGAGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGCACCCGCACAAACCGGGCGACCAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G178998_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------gcatgaacatgctcatttgaaggacatatttgagtttcgaa-tttctcccacatagagtttttgttttgggattggtggatat----cttgatactgatga-----tattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACG-TCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
||| || || | || || |||| | || || | | | | || || ||| | | || || | | || | || | || | | | | ||| | | | | | | | |||||| |||| || ||||||||||||||||||||||| ||||| || || ||| | || | || |||| || |
gtacatcaacctaaactcgatttgtactccgagcttgcatgatgagacataaaactgt--acttagctgagatatgtacacctcaaagcatgtgtggaacaacaagcttcttgtggagtcattatgcatgaagctcaacggttataagccgctaactcacttctacatatgcatggtgacgaaacagAAAAGTGCAGGATTGGAAGCGAAGAGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCAACCGGCACTCGCACCAACAGAGCGACGAC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G440219_T01 (Zea mays), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatat-tcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| ||||| ||| || || | | || || | | |||| || | | | || | || | | | || | | ||| ||||| | || | | || || |||| || ||||||||||||||||||||||| ||||| || || || | ||| | || ||
---------------------acaaatattcgagaacggagacactactgctatatacattctttcagagtatggtatatcacatcctcct-acgacacatgcacattattattattagcagACAAGTGCAGACTGGGAGGCCCTGGTGAGGAGGAGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGCACCCGGACCAACCG----------
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA05G04250.1 (Glycine max), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcga-atttctcccacatagagtttttgttttgggat-tggtggatatcttg-atactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| || ||| | | | ||||| |||| | || | || ||| || ||||||| ||| | | || | ||| |||||| || || ||||| || || |||||||||||||||||||| || || |||||||||||||| || | || | ||| |||| ||
---------------------aaatatttttttttcttaatggaagcattacatatagttaataacatgaatcatagtatataatttatatactgacataatttgttgctcatgtaaa---cagAACTATGCAAAATAGGA---------ACCGATGAACAAAGTGACTGGTACTTCTTCAGTCATAAAGATAAGAAATATCCAACTGGAACTCGCACCAATAGAGCTACAAA-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatac--tgatgatattcaatttttgtg-gcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
|| | ||| | | | | ||| || | || | || |||| | | | | | | ||||| || || | ||| || ||| || ||||| ||| | || || | |||||||||||||||||||||||||| ||||| ||||| ||||| | | | || || || || |
----------------------------gttaaaccctaaatatgaaaaaaa-actctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGT----TCAACGCCA-----CAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G36160.1 (Arabidopsis thaliana), 3'ss of exon 2
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| | ||| | | ||| | |||| || | || || ||| | | | || || | || | || || ||| | ||| ||||||| | |||| || || || | ||| | ||||| | | | || | ||| ||||| |||||||||||||| |||||||||||||| || | | |||| |||| |||
gttttcacaaaat-acatgatg--catacttaatttaggatttttttcttc------ttcttaatctgacaatg-tgaatacatagat-ctgatgagcattaatt---atgtatattatagAGAGCTGCCGAATCGGATATG---------AGGAAAGAAATGAATGGTATTTCTTCAGCCACAAAGATAAGAAATATCCAACAGGAACAAGAACAAACAGAGCGACCAT-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G10350.1 (Arabidopsis thaliana), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagttt-ttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| || | | | |||| | | | || | || | |||| ||||| | ||| || | | || | || |||||| || || | ||||| ||| || ||| |||| || | || ||||||||||||||||||||||| | ||||||||| ||| | | || || || ||
---------tatatatatatat-atatatatatatatagatatatatgcatgaaaagttcattgttatacaattctctaatttgta-----tgttatctttttattttt-------tggaagAGAGATGCAAGATAGGA----TCAACACCA-----CAAAACGAATGGTACTTCTTCAGCCACAAGGACAGGAAATATCCGACGGGGTCAAGGACCAACCGTGCTACTCA-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT1G33280.1 (Arabidopsis thaliana), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
| || | || || ||| | | | || | | | | | | |||| |||| | | ||| ||||||| | || ||||| || || ||| | || || | ||| ||||| ||||||||||||||||||| ||||||||| ||| | |||| || || |||
---------------------gtacgttcttttatt---aataatacatatac-gatccaatcctctagttatattagatact---atacaaaag-cattttttttttgtttttgt---agATAGATGCAAAATAGGA----TCAACGCCA-----CAAAATGAGTGGTATTTCTTCAGCCACAAGGATAGGAAATATCCGACAGGGTCAAGGACAAACCGTGCAACCCA-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv04s0023g03110.t01 (Vitis vinifera), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
|||| |||| | | ||| || |||||| | || | |||| || ||| | | | | | |||| | |||| | ||| ||| | |||| |||||||| | | |||| |||| ||| ||||| ||||||||||||||||||||||||||||| |||| | | ||| |||| |||
-ggctaacactttcataagctagccat----------cgcatttctgataagtaaatccgttgtgttttccttgttcaa-agcgaataattgat----ctgaattataatgga-----cagAGAGATGCCGGATCGGGTATG---------AAGAGCAGAATGAGTGGTATTTCTTCAGCCACAAGGATAAGAAATATCCAACGGGGACGAGGACCAATAGAGCGACCAT-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv15s0048g02660.t01 (Vitis vinifera), 3'ss of exon 1
gcatgaacatgct-catttgaaggacat-atttgagtttcgaatttctcccacatagagtttttgttttgggattggt--ggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGAC-CAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACC-GTGCAAATCGAGCCACCGCC
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-----gttgtgcttcatatttagttcatcgcctctcattcttttctcttaattttgcaattcttgttgaatattccatcaagatagcgtgtatcttcccctttgtgatgttcatatcggc-ttgggtttttgcagAGAAGTGTAGAATAGGATCCACCCCTCAAAACGATTGGTACTTCTTCAGCCACAAGGACAAGAAATATCCA-ACGGGAACCAGGACTAATCGCGCCACTGC-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv19s0085g01210.t01 (Vitis vinifera), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatga-tattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
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-------------------------actaatcagtccgcaata---cccaaaagcaagattaaagttgatattattg--cagtacggtattgggaaatttttcatgtttttggatttggttggcatgcagATAAATGCCGA-ATTGGATCAGGCTCTCAGAACGAGTGGTATTTCTTCAGCCACAAGGATAAGAAATACCCAACTGGAACTCGAACAAACCGAGCAACCAT-
upper sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv18s0089g01120.t01 (Vitis vinifera), 3'ss of exon 1
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgt---caggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
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-----------------caacagccaaacatatccctaatatttattggctata---cttttgtt----gatgaattattattttgatgttgtaacttagttgattttgtgtatatgtatgcagAGAGATGTAGGATTGGGTCCA-CACCAC--------AAAATGAGTGGTACTTCTTCAGCCACAAGGATAGGAAGTATCCAACAGGGTCAAGGACTAATAGAGCCACAAA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
tactgat putative branch site (score: 2)
atgatattcaattttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatactgatgatattcaatttttgtggcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA