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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa...

Basic information

species Glycine max
transcript GLYMA02G26480.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g66120.1 (Oryza sativa), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcacta--tcgaggacataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa-
|||||| || ||||||||||| | ||| || |||||||||||||||||||| || ||||||||||| || || || | ||||| ||||||||| | |||||| | | | ||| ||| | |||||| | | || ||| || || || | | || | ||||| ||| | |
CGCCGGCAAGGCGCCCAAGGGCGAGAAGACCAACTGGATCATGCACGAGTACCGCCTCGCCGACGTCGACCGCTCCGCCCGCAAGAAGAACAGCCTCAGGgtaagcaaaaac-cacacccaagattc-catcactaaattcattactaaatctgtgtt-catcgtgattattgattaatttagtcacctaattattcgcccaa

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os05g34830.3 (Oryza sativa), 5'ss of exon 1
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgccctt------ttttctc---ttcactatcgagg-acataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa
|||||| || ||||||||||| | || || |||||||||||||||||||| || ||||||||||| || || || | ||||| ||||||| | | ||||| ||| ||| |||| || || ||| || || | | | ||| | ||| ||| | | ||| | | ||||| || ||
CGCCGGCAAGGCGCCCAAGGGCGACAAGACCAACTGGATCATGCACGAGTACCGCCTCGCCGACGTCGACCGCTCCGCCCGCAAGAAGAACACCCTCCGGgtacata----tatacgccattaattaattacctcgaatttgctcttaattcatcaaattcaaattcagacgaat-tctactctcagttaatcaagtttagacaa-----

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os11g08210.1 (Oryza sativa), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtat---ata------ccagtatgcgcccttttttctcttcactatcgaggac--ataa--tagacatttca-acgcacatttacctttcgaaaatcaccgttttaccc---tttaa----
|| || || |||||||||||||||||||| || ||||||||||| || || || | | || || | | | | | ||| | | || |||| || | || | | ||| || ||| || | || | | | || | || ||||||| ||| |
---------------------CGTCAAGACCAACTGGATCATGCACGAGTACCGCCTCGCCGACGTCGACCGCTCCGCCGCCGCCCGCAAGCTCTCCAAGTCCTCCCACAACGCCCTCAGGgttagtatttacttcttttaattacttacttctcctaatctaatcatctcttgctttcaatcatttctcctcaccaacgaatttacccccattttatttt

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G014653_T02 (Zea mays), 5'ss of exon 1
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagac-atttcaacgcacatttacctttcgaaaat-caccgttttaccctttaa
|||||| || ||||||||||| | ||| || |||||||||||||||||||| || ||||||||||| || || |||| ||||| ||||||||| | |||||| || || | || | | | | | | | | | | | | |||| | | || | ||| ||| || ||| |
CGCCGGCAAGGCGCCCAAGGGCGAGAAGACCAACTGGATCATGCACGAGTACCGCCTCGCCGACGTCGACCGCTCGGCGCGCAAGAAGAACAGCCTCAGGgtaagaacaagcgctccgccgccgtccgtccgtccgttggcgtcgtcaccgtccaaatcaaacaaaaagaacttggcgataatgtgtcgctttcgtaatg--

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G123667_T03 (Zea mays), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGT--TCGCAAA-AAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagacatttcaacgcac----atttacctttcga--aaatcaccgttttaccctttaa---
||||||||| || || || |||||||||||||||||||| || ||||| ||||| || || |||| |||| ||||| | | | | | || | | | | | || ||| ||||| | | | | || | || | || || || | | |||
------------GCCCAAGGGCGTCAAGACCAACTGGATCATGCACGAGTACCGCCTCGCGGACGTCGACCGCTCGGCCGCCGCACGCAAGAAGACCAACAACGCGCTCAGGgtaattcactacaccatgacctttctcaggagaacatatttatctccccgaaatactgacacttgcagttagagggaaaaaatatagagagaagtaaaaa

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G01720.1 (Arabidopsis thaliana), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAA---CAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa
||| ||||| || ||||||| |||||| || ||||||||||||||||| |||||||||||||| || || || |||||||| ||||| || | ||||||| | || | || |||| | || | | | | |||| | | ||| | || | | |||| |||
---CGGCAAAGCTCCAAAGGGAGAGAAAACCAATTGGATCATGCACGAGTACCGTCTCGCCGACGTTGACCGGTCCGTTCGCAAGAAGAAGAATAGTCTCAGGgtatggaatcagatctga---ttcacatctttgtt-tcaatctcttgttc--tgtttctg-gtaaattgaatcaacggtgttgat--ttttgcccag---

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S164_25V6.1 (Physcomitrella patens), 5'ss of exon 3
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACG-TGGATCG--TTCGGTTCGCAA------AAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcg--aggacataatagacatt-tcaacgcacatttacctttcgaaaatcaccgttttaccctttaa-------------------------------------------------------------------------
||| || ||||| | |||||| ||||||||||||||||||||||| ||||| || | || ||| || || | || |||| | | |||| | || || | ||| | | ||||| || ||| | || || | | | | | ||||| | || ||| || |
---------AGCACCAAAGGGCGAGAAAACGAACTGGATCATGCACGAGTATCGCCTCGCTGAAGGTGTCTCGACCTCCACTCATCATCCTCGAAGGAACTCTTCGCGAgtatgt-cctccattc-ccccacctcacatgcactaccgttaggtcttattaaaggctgtttatgagaatttaggaccaggttttcgaagttgaacttctagggtttctgagaacatgtccaacgtagtctcgagaattttcctcctcaccttttgactaaattttggtaatgcag

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S117_16V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGG-ATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagac-atttcaacgcacatttacctttcgaaaatcaccgttt--taccctttaa------------------------------------
|| |||||||| | |||||| ||||||||||||||||||||||| || || || | || ||| | | | || | | | | | | | | | | ||| ||| | | | | | || || ||| |||| | | | || | |
---------GGCCCCCAAGGGCGAGAAAACCAACTGGATCATGCACGAGTATCGCCTTGCTGAAGGGGTGTCGCCCTCTGCTCACCATCACCGCCGCGGCTCCTTGCGGgtatgtatagcgtacatctcactcaacatcaggagtaaacctgtcgatcatgctagttgcctatgattcctgaatcgatatatgttgcctgtggaccagcgaatgacgcccgtctaattttgtggctgcag

upper sequence: GLYMA02G26480.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S259_83V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACG-TGGATCGTTCGGTTCGCAAAAAGA-----ACAGCT---TAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa--------------------------------------------
||| || ||||| | ||| || |||||||||||||||||||||||||| || || | || ||| | | | | | | ||| | ||||||| || | | || || | | |||| ||||| || | || | | | | |||| | ||| | | | | || ||
---------AGCCCCAAAGGGCGAGAAGACAAACTGGATCATGCACGAGTATCGTCTTGCTGAAGGTGTCTCGCCCCCCGCACGCCATCACCGCCGCGGCTCGCTGAGGgtatgtatgactcctcgatctccaat-tgctcacc-tcgagtg-attctgcgtatcatgccaatcgctcatgtttctaggatc-catctatgctattcaaggtaaatggtgatctgtggactgacatctagtttgagagtgcag

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|16346906|gb|BI972501.1|BI972501
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|22540547|gb|BU090390.1|BU090390
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCANAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATCTACAACAAGAAAAGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|19934896|gb|BQ079917.1|BQ079917
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|6502164|gb|AW203537.1|AW203537
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCANAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAAGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|11274497|gb|BF324850.1|BF324850
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGCGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|16996103|gb|BM085475.1|BM085475
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|15664421|gb|BI701792.1|BI701792
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGNTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|16996231|gb|BM085603.1|BM085603
EST:     CGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: CGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|37996761|gb|CF808350.1|CF808350
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCANAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGANAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|26060240|gb|CA803154.1|CA803154
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|37995754|gb|CF807343.1|CF807343
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACACGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|9258054|gb|BE346201.1|BE346201
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|207843768|gb|GD816571.1|GD816571
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|15663366|gb|BI700737.1|BI700737
EST:     CGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: CGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|20075850|gb|BQ094633.1|BQ094633
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
EST: gi|16995647|gb|BM085019.1|BM085019
EST:     ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGG                         CTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG
genomic: ATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatatacca ... gattatgcagCTGGATGACTGGGTGCTGTGTCGAATTTACAACAAGAAAGGTGCAATTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCCGGAAAAGCGCCCAAGGGAGTGAAAACTAACTGGATCATGCACGAGTATCGTCTCGCCGACGTGGATCGTTCGGTTCGCAAAAAGAACAGCTTAAGGgtatataccagtatgcgcccttttttctcttcactatcgaggacataatagacatttcaacgcacatttacctttcgaaaatcaccgttttaccctttaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC