ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

...ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA

Basic information

species	Zea mays
transcript	GRMZM5G826714_T01
intron #	3
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g32110.3 (Oryza sativa), 3'ss of exon 1

ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtc-tagattttatagcagaga--gggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
   |||  ||    |||    |  | ||  ||          ||| |  | || | || ||    |      | ||||||||| | | |   | | | |||||||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||||||||||||
---atcatagtggctccatatagaagttaaatttgtcaaaatcttataccataaagttcatttttgttttttgtttcttaacaaaaataaaatctgtttgcagTGACATGGAATGTGACCTGCACATACTCCCAATTTCTTGCTCAGAAGACTCCTTCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g54750.1 (Oryza sativa), 3'ss of exon 3

ctaatcgcag--atagtcctaggaagaattccatacaagttgcacttttgt-ctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
 ||| |   |  || |   || ||  | ||  ||     ||  | | || | | |||  || |  |      | ||||||||| ||| |  || ||  |||||||||||||||||||||||||||||| || |||||||||||||||||||||||| |||| ||||||||||| || || ||||| |||||||||||||||||
-taagcatcgtgatggcgttatgagaagttaaattatgttttaagtcttataccagaaatt-tctctttattgattcttaaca-agataaactctacttgcagTGACATGGAATGTGACCTGCACATACTCACAATTTCTTGCTCAGAAGACTCCAACCTGTTGTGTATCTCTCTCGTCATTTTACAATGACACAATTGTGAA

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G06660.1 (Glycine max), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgc-acttttgtctag----attttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
     |  |     ||  |  ||  | |   |   ||||   ||||    ||||    ||     | |  ||   |  |||||||  |   |  ||||| ||||||||||||||||||||| ||||||||||| ||||||||||||||||  || ||    |||||||| || || ||||| || |||||  | ||| ||||   
----ccatacgggatctaaataaacagttgttctgagtttttacttcctactagcaaaatccatcaacttagtttgaccttaacattgctctgatttat-tgcagTGACATGGAATGTGACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGTGTCTCGCTCTCATCTTTCTATAACAATACAGTTGTACC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G32130.1 (Glycine max), 3'ss of exon 3

-ctaatcgcagatagtcctaggaagaat-tccatacaagttgcacttttg---tctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
   ||| | |  |  |  |  |   | | | || |  ||||     | ||   || | ||| || |       |  | ||||||    | ||| | |    |||||||| |||||| | |||||||| ||||| ||||| || ||||| ||||| |||   |||||||| || || ||||| || |||||||||||  |||| ||
atgaatagtaatttatgttttgtccattgttcagaagagttaagagtatgaaatccaaattctagattcttttg--tacttaacctgcatattttgtg---gcagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGACACCAAGTTGCTGTGTTTCCCTCTCATCCTTCTATAATGACACCGTTGTAAA

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G35400.1 (Glycine max), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgc-acttttgtctag----attttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
     |  |     ||  |  ||  | |   |   ||||   ||||    ||||    ||     | |  ||   |  |||||||  |   |  ||||| ||||||||||||||||||||| ||||||||||| ||||||||||||||||  || ||    |||||||| || || ||||| || ||| |  | ||| ||||   
----ccatatgggatctaaataaacagttgttctgagtttttacttcctactagcaaaatccatcaacttagtttgaccttaacattgctctgatttat-tgcagTGACATGGAATGTGACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGTGTCTCGCTCTCATCTTTCTATGACAATACAGTTGTACC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G00210.1 (Glycine max), 3'ss of exon 5

ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA----------------------------------------------
                                            || || |  |    | ||    |      |||||     | ||  ||  |  |||||||| |||||||| |||||||||||||| ||||| || ||||||||||| ||| | ||| |||| ||||  ||||| || |||||  | ||||| || ||                                              
-----------------------------------------ttattagtatgaaaccca-agttttggtttagcttaatctgcatatattt--ttggcagtgacctggaatgttacctgcacatattctcaattcctggctcagAAGACCCCAACTTGCCGTGTTTCTC--TCATCCTTCTATAACAATACAATAGTAAACTGCCCTACCTGCACCTGTGGTTGCCAAAACAAAACAGAACCTGGC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgc-acttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
 ||  || | |  |||| ||  |  | |   |   ||||   | ||    ||||            |    |||     ||  |   |  |||||  ||||||||||||||||| || ||||||||||| ||||||||||||||||  || ||    ||||| || || || ||||| || ||||| || ||  ||||   
ttatccgaaaagggtccaagttaacagttgttctgagtttttagttcctactagcaagatccatcaacttagtttgacccattgctctgatttatg-gcagTGACATGGAATGTAACATGCACATATTCACAATTTCTTGCTCAGAGAACACCCAGTTGCTGCGTCTCGCTTTCATCTTTCTATAACGATACTGTTGTACC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G27560.1 (Glycine max), 3'ss of exon 3

---ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
     |||   | | | |   ||     | |   ||  |||   ||| |     |  | |   |    |     | | |||||      || ||||| ||||||||||||||||||||| |||||||| || |||||||| ||||| || ||||| || || ||||| || || ||||| || |||||||| ||  ||||   
gcttaaatttaaaacaattgaagtttacagttggtattagt--aactatcagaaaattctggcaatttactatatccataacatcactcttgtttat-tgcagTGACATGGAATGTGACATGCACATACTCACAATTTCTGGCTCAAAAAACTCCCTCTTGTTGTGTCTCACTTTCATCTTTCTATAATGATACCCTTGTTCC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G08830.1 (Glycine max), 3'ss of exon 2

---cta-atcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
    ||      | | | |  |  ||  ||||  ||     |   |    ||| |   ||||  ||    |      |||||     | ||  ||  |  |||||||| |||||||| |||||||||||||| ||||| || ||||||||||| ||| | |||||||| ||||| ||||| || |||||  | ||| | || ||
tatttatgctttatacattgttcagataaatt--attagtatgaaaaccatgttttagtttttcagatttggtttagcttaatctgcatatattt--ttggcagTGACCTGGAATGTTACCTGCACATATTCTCAATTCCTGGCTCAGAAGACCCCAACTTGCTGTGTTTCTCTCTCATCCTTCTATAACAATACAGTAGTAAA

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattcca--tacaagttgca-cttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
 |  |   |  ||   | |   | |||| ||  |   |  || | || |   |||  | |   |          | |||||||    || |  || | ||||||||||||||||||||| |||||||| || |||||||| |||||||| ||||| || |||||||| || || ||||| || |||||||| ||  ||||   
gtgcttaaatttaaaacaactgaaaattacagttggtacctgtaactatcagctaattctagcaatctgttatatccttaacat---cacttgttttttgcagTGACATGGAATGTGACATGCACATACTCACAATTTCTGGCTCAGAAAACTCCCTCTTGCTGTGTCTCACTTTCATCTTTCTATAATGATACCCTTGTTCC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G02210.1 (Arabidopsis thaliana), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
 |||    |   ||| || | |      | | |||| ||  |||||||  |  | |     | | |  | ||| |           ||||       ||||||| |||||||| || |||||||| || || ||  | |||||||| || ||| | |||||||||||||| ||||||||||||||  | ||||| ||   
gtaagt-tactcagttcttgaactctaccaaaacaaatttgacttttgagtgaaat-----gaaaactgagttttggcttttctttttctgctgtgacagTGACTTGGAATGTAACTTGCACATACTCGCAGTTCTTAGCTCAGAAAACACCAACTTGCTGTGTATCTCTTTCATCGTTTTATAACAAGACAATAGTTTC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacattctttatct------gcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
   |     |  || |  |   | |||     | || |||   | ||     |  |||| ||            |||||  |   | ||||  | |      |||||||| |||||||| || ||||| ||||| ||||| || ||||||||||| ||  | || ||||| ||  | |||||||| |||||| |||| || ||   
---aggatggcaagacacattgacaat---ggataatttgtgttcttaatatgcatttaaagagttctcaagatttaactaatctaatcttcctgtcctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGCCTACATGTTGTGTCTCATTGTCATCGTTCTATAATAACACTATAGTATC

upper sequence: GRMZM5G826714_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 3

ctaatcgcagatagtcctaggaagaattccatacaagttgcacttttgtctagattttatagcagagagggttcttaacagagacat-tctttatctg---cagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA
      | ||  | || ||     ||||     |       | |      | ||  |  || |    |  || ||   |  | || | | | | ||||   |||||||||||||||| || ||||| ||||| ||||| ||  ||||||| || ||  | |||||||| || || ||||| || || ||||||||||||||   
----agggagtgattcttaaaggcaatttttgtcttccctaattaaaaatttgagctattacccataaatgtactgggcctaaacttatttctctctgtgacagTGACATGGAATGTTACATGCACGTATTCACAATTCCTGTCTCAGAAAACCCCCACTTGCTGTGTCTCGCTCTCATCTTTCTACAATGACACAATTGTACC

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|32831333|gb|CD971011.1|CD971011

EST:     GCCTACAAAGTTTTTCACCGCGGATGGGCGCAGGGCAACCCAAGCTCTAA                         TGACATGGAATGTGACCTGCACATATTCCCAATGTCTTGCTCAGAAGACTC
genomic: GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC

EST: gi|50332123|gb|CO527249.1|CO527249

EST:     GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAA                         TGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC
genomic: GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC

EST: gi|91871212|gb|EB401300.1|EB401300

EST:     GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAA                         TGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC
genomic: GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC

EST: gi|32836940|gb|CD976618.1|CD976618

EST:     GCCTACAAAGTTTTTCACCGCGGATGGGCGCAGGGCAACCCAAGCTCTAA                         TGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC
genomic: GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC

EST: gi|32846222|gb|CD985903.1|CD985903

EST:     GCCTACAAAGTTTTTCACCGCGGATGGGCGCAGGGCAACCCAAGCTCTAA                         TGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC
genomic: GCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTC

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), 49 (downstream exon)
Score: 228

CTTAAGACTCCAGGCCCTGGGTACACATGTGGGCGTGCCATTGTTGGCAGGCCTACGAAGTTTTTCACCGCGGACGGGCGCAGGGCAACCCAAGCTCTAAgtaagttgcc ... ttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 271

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 303

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 654

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttgtctagattttatagcagagagggttcttaacagagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTATCATCGTTTTATAATGACACAATTGTGAA