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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag

Basic information

species Zea mays
transcript GRMZM2G124434_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 5'ss of exon 4
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag
||||| |||||||| ||||||||||||||||||||||||||||| |||||||| || ||||||||||||||||| || ||||| || |||||||||||||||  |  |   |||| || ||   | | | |   ||   |  ||         |  |||  |||   |||  | ||  ||  ||    
GCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACAACATATATGGCCCCTTTGGAACATGGAAAGgtagaagtttaaccaattctccaagttattgaactgtacttgtactgg---ggcatcct--taactcaat-ttgtcaatggatag---

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaa---atgctctctttgtctatcag-------------------------------------
||||| |||||  | ||||||||||| | |||||| ||||| || ||||||||| | ||  | ||||||||||| ||||| ||||| || |||||||||||    | |   ||    ||       | |     |  |    || |||          || || | |    ||| | |  |   || |  |                                     
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G30400.1 (Glycine max), 5'ss of exon 3
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgt---ctatcag-------------------------------------
||||| |||||  | ||||||||||| | |||||| ||||| || ||||||||| | ||  | ||||||||||| ||||| ||||| || |||||||||||      |   ||    ||    |  | |     |  |    || |||          || ||   |  |  | | || ||   || || |                                     
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgtttttcactgaattgaaagcttttatagttttgactttaccaaatgggtaaattggtagtcattttatattttggtaacctttcggatttaataagtttgtgttttgttgttttgtcatacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 5'ss of exon 3
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaa---------------cctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaat--gctctctttgtctatcag-----------------------------------------------------
|| ||||||||| ||||||| || ||||| |||||||||||||| ||||||||| | || ||||| |||||||| || ||||| | |||||| ||||| ||| |                || |  |  | |    |      |  || | |  | ||  |||  | | |      |||   | |  | | |  |||| | |                                                        
GCCACCGAGGAGTTGTGCAAACATTACACGAAGGACTTTGGCATGGAGTGCCGCATTGGTCGCTTTCACAACATTTATGGCCCATACGGAACCTGGAAGGgtaagtacaggagagattcgcccatcattattcacttttttaatctctttaaacttatctcaaatcgaagtatcattaatgtagtcagatgtacttgtgttttgccttgattctttctcgagggttctgagtaaccattgttgagcttgcctgtacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 3
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtga-acctactaccagttttctgggctgtggctgtgaggtcataac--aatccaa--cggcctgataaaaaaatgctctctttgtctatcag-------
|| || ||||||||||| | |||||| || |||||||| ||||| ||||| ||| | || || ||||||||||||||||| || |  ||||| ||||| ||| | |  |  ||    |  ||     | |  || |    | | |||  | | |||  |  | || |   ||     ||          |||        
GCCACGGAGGAGCTGTGTAGGCACTATACAAAGGACTTCGGCATGGAGTGTCGCATTGGTCGTTTCCACAACATCTACGGTCCCTATGGAACCTGGAAGGgtaataattcgtaaggctcctcgtcattttcactatctcttaaaaactgatttcaaatctacatgtttgcaatgcagtcagaagaatcctcattttgagc

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S98_250V6.1 (Physcomitrella patens), 5'ss of exon 3
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactacc------agttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag---------------------------------------------------------------
|| || |||||| |||||||||| ||||| |||||||| ||||| ||||||||  | || || ||||||||||||||||| || | |||||||||||| ||| | |  ||   |      | || ||          |  |||  |  |    |          ||         | || |  || ||| ||                                                                 
GCCACAGAGGAGTTGTGCAAGCATTACACAAAGGACTTCGGCATGGAGTGCCGAATTGGGCGTTTCCACAACATCTACGGACCCTACGGAACATGGAAGGgtaagcaaacagtccatcgaaattctccaaatcacctcactgacattgtgttcacatttgcatttgcggcttcttttcttttcttttctttcttgtgttttaagcttccctataggcctgttcattgaagccaagtatgagatttccttctgctcag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ19598 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctact-accagttttctgggctgtggctgtgaggtcataacaatccaac--ggcctgataaaaaaatgctctctttgtctatcag
 ||| | || |||||||||||||||||||||||||| ||||| |||||||||||| | || || |||||||||||||| || || || || || |||||||||||    |   |      |  |   || |     | ||             |||   |  || |  ||||                    
TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGGCCCTTTGGGACCTGGAAAGgtgagttcatagattgagatcttcttctttcttctttagcctgagtgggagtaactgagattgtttcaaaaccag----------------

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ34003 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataac--aatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| |||| |||||||||||||||||||||||||||||||| |||||||||||  | || |||||||||||||||||||| ||||| || || ||||||||||| | ||       || |  |  ||    || |    || |     || |  |  |  ||||     | ||     |   |||  |||
TGCA-CCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctta-----gattcttggaacttcctctttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ12864 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag
 |||   || |||||||||||||||||||||||||| ||||| |||||||||||  | ||  | || ||||| || || || ||||| || || ||||||||||| |   |||  |  ||| |    |      || || ||||     |      |  |||| |||||    ||              
TGCAGT-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACAATATTTATGGGCCTTTTGGTACCTGGAAAGgtgagcggtcta--aagtttgttctttactctcgt-agctcatg----tattggtgattgatgaaaaacaattcag------------

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ33664 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataac--aatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| |||| |||||||||||||||||||||||||| ||||| |||||||||||  | || |||||||||||||||||||| ||||| || || ||||||||||| | ||       || |  | |||     | |    || |     || |  |  |  ||||     | ||     |   |||  |||
TGCA-CCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctta-----gattcttggagcttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ09286 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag
 |||   || |||||||||||||||||||||||||| ||||| |||||||||||  | ||  | || ||||| || || || ||||| || || ||||||||||| |   |||  |  ||| |    |      || || ||||  || |      |  |||| ||||     ||              
TGCAGT-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACAATATTTATGGGCCTTTTGGTACCTGGAAAGgtgagcggtcta--aagtttgttctttactctcgt-agctcatg-catt---ggtgattgatgaaaaccaattcag------------

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ18599 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| | || |||||||||||||||||||||||||| ||||| |||||||||||| | || || |||||||||||||| || || || || || |||||||||||    |     || ||   | | | |   | |    || | |   |     ||  | |   | |       | |||   || |||
TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGACCCTTTGGGACCTGGAAAGgtgacttcat----agatt---gagatcttcttctttcttctttagcttgagtgggagtaactgaga------ttgtttcaataccag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ37510 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataac--aatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| |||| |||||||||||||||||||||||||| ||||| |||||||||||  | || |||||||||||||||||||| ||||| || || ||||||||||| | ||       || |  |  ||     | |    || |     || |  |  |  ||||     | ||     |   |||  |||
TGCA-CCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctta-----gattcttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ37016 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataac--aatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| | || |||||||||||||||||||||||||| ||||| |||||||||||  | || |||||||||||||||||||| ||||| || || ||||||||||| | ||       || |  |  ||     | |    || |     || |  |  |  ||||     | ||     |   |||  |||
TGCA-CGGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctta-----gattcttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacag

upper sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ10353 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtc---ataacaatccaacggcctgataaaaaaatgctctctttgtctatcag
 ||| | || |||||||||||||||||||||||||| ||||| |||||||||||| | || || |||||||||||||| || || || ||||| |||||||||||    |      |   |||      ||  | |   | |    |   | |      |  || |  ||||                    
TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGACCCTTTGGAACCTGGAAAGgtgagttcatagattgagatcttcttcttgcttctttagcctgagtgggagtaactgagattgtttcaaaaccag----------------

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|148941150|gb|EC886023.2|EC886023
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGC
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGC
EST: gi|149075250|gb|EE163754.2|EE163754
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTT
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTT
EST: gi|148986030|gb|EE029877.2|EE029877
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|67022927|gb|CO451676.1|CO451676
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCANACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|50327568|gb|CO522694.1|CO522694
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148944625|gb|EC889756.2|EC889756
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|149085930|gb|EE175457.2|EE175457
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTC
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTC
EST: gi|76014792|gb|DT941962.1|DT941962
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|111189030|gb|EE287166.1|EE287166
EST:     GCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: GCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148943841|gb|EC888919.2|EC888919
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTG
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTG
EST: gi|67016994|gb|CO445743.1|CO445743
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|67023443|gb|CO452192.1|CO452192
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|149080013|gb|EE169034.2|EE169034
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148943579|gb|EC888642.2|EC888642
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|71432080|gb|DR813130.1|DR813130
EST:     TTTCGGAACATGGAAAG                         GTGGCCGGGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: TTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|149004990|gb|EE039510.2|EE039510
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|71432081|gb|DR813131.1|DR813131
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|67025719|gb|CO454468.1|CO454468
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|31353274|gb|CD437631.1|CD437631
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|149004882|gb|EE039392.2|EE039392
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|91877152|gb|EB407109.1|EB407109
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCT
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCT
EST: gi|67021931|gb|CO450680.1|CO450680
EST:     CTTCC-CAACATCTACGGCCCTTTCGGAACATGG-AAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148959388|gb|EE010762.2|EE010762
EST:     CCGCGTCGGCCGCTTCCACCACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGG
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGG
EST: gi|71766426|gb|DR964363.1|DR964363
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|78110081|gb|DV528496.1|DV528496
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCC
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148940561|gb|EC885363.2|EC885363
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|148930700|gb|EC872950.2|EC872950
EST:     CCGCGTCGGCCGCTTCCACA-CATCTACGGCCCTTTCGGAACATGGGAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTC
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTC
EST: gi|149087879|gb|EE177150.2|EE177150
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCTAGAA-GGCTCAGACATCC
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGC-AGAAAGGCTCAGACATCC
EST: gi|148932049|gb|EC875384.2|EC875384
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGATGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|31361616|gb|CD445973.1|CD445973
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|71766875|gb|DR964812.1|DR964812
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|74242204|gb|DT650118.1|DT650118
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|76017298|gb|DT944468.1|DT944468
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|71769936|gb|DR967873.1|DR967873
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|149099241|gb|EE185272.2|EE185272
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGGCGCGAGAAGGCACCGGCTGCCTTCTGCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCA
EST: gi|31354646|gb|CD439003.1|CD439003
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|71429280|gb|DR810330.1|DR810330
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCCCCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
EST: gi|67014813|gb|CO443562.1|CO443562
EST:     CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAG                         GTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA
genomic: CCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCA

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), 46 (downstream exon)
Score: 153

GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCACGGAGAGGTTTGAGATGTGGGGCGATGGTCTCCAGACCAGGTCCTTCAC


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 516

GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCACGGAGAGGTTTGAGATGTGGGGCGATGGTCTCCAGACCAGGTCCTTCAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 431

GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCACGGAGAGGTTTGAGATGTGGGGCGATGGTCTCCAGACCAGGTCCTTCAC


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 153

GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctac ... tgtctatcagGTGGCCGCGAGAAGGCACCGGCTGCCTTCTGCAGAAAGGCTCAGACATCCACGGAGAGGTTTGAGATGTGGGGCGATGGTCTCCAGACCAGGTCCTTCAC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaaatgctctctttgtctatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA