ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA

Basic information

species	Zea mays
transcript	GRMZM2G472231_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g15260.1 (Oryza sativa), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttc--ttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
                             |  |  ||   | | |   |  |   | |  ||| | ||||||||  | | |||   | | | ||  || ||| ||          |  |||| |||       || |  ||  |  |||| |||||||||||||  |||||||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||||||||||||||||
----------------------------gtaaccactcgatcccccgcacctccctcctctcgattcccttgttccctgattcggattgctcggtttgcgatgtga------aatggtttttgtgt-------tttttggttcgctagGCGTTCGAGAAGCACACCATGGAGAAGGACATCGCGGAGTACATCAAGAAGGAGTTCGACAAGAACCACGGCCCTACCTGGCACTGCATCGTCGGCCGCA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G04820.1 (Glycine max), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcg-ctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctg-tcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
                 | | | |  |    |  |||  ||    |||  | |  ||   ||  |||   |||    | | ||||  ||| ||  | | | |||     ||| |   |    | | ||    ||  | | | | |||||| || |||||| ||| | ||||||| ||| | |||||| | ||||||||||||||||| ||||  || |||||||| ||||| || ||||| || || |
---------------gttagttttaacgactctctctctctatatctctctctttttatggttcctcgttttggattctgtttctgggtttgg--ttgtacttgctgtgttgtgtcgtaaagtcttgacctttttgcggattgttcagGCGTTTGAGAAGTACAATGTGGAGAAAGACGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACGTGGCATTGTATCGTTGGACGTA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G16060.1 (Glycine max), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
|| ||      |   | ||  |||| ||||  ||| ||  |  | |    |||||||     | | |  ||  ||     |  |  | | |   ||   | |    |  |   ||| ||| ||  ||||  |           ||||| || |||| | ||| | ||||||| ||| |||||||  | ||||||||||||||||| ||||  || |||||||| ||||| |||||||| || || |
gttagt-ttcaacaactttcttctctctctctcttttttttatggttc-cttggttt----ggattctgtttctgggttttgttgtgcttgctgtgttgtgtcataaagtcttgacctttttgcggattatt-----------cagGCGTTTGAGAGGTACAATGTGGAGAAAGACGTCGCGGAACAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G04830.1 (Glycine max), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
|| ||  |   |   | ||  ||||  | |    |  | ||    ||| ||||| ||| ||  ||    ||| |      | || |||||    ||   |   | | |     ||| ||| ||  ||||  |           ||||| || |||||| ||| | ||||||| ||| | |||||| | ||||||||||||||||| ||||  || || ||||| ||||| |||||||| || || |
gttagt-ctcaacaactttcttctcttttttttatggttct----tcgttttggattctgtttctgggtttggttgtgcttgctgcgttg----tgtcgtaaagtctt-----gacctttttgcggattatt-----------cagGCGTTTGAGAAGTACAATGTGGAGAAAGACGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGACCCACTTGGCATTGCATCGTTGGTCGTA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G16050.1 (Glycine max), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctg-tcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
                       | | |  | |  ||| || |  |   ||||      ||  |||   |||    | | ||||  ||| ||  | |   |||     ||| |   |    | | ||    ||  | | |   |||||| || |||||| ||| | ||||||| ||  | |||||| | ||||||||||||||||| ||||  || |||||||| ||||| |||||||| || || |
---------------------gttagtttcgacaactttctcctttttttttg----tggttcctcgttttggattctgtttctgggtttgg--ttgtgcttgctgcgttgtgtcataaagtcttgaccattttgcggattattcagGCGTTTGAGAAGTACAATGTGGAGAAAGATGTTGCGGAGCAGATAAAGAAGGAGTTCGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G15930.1 (Arabidopsis thaliana), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
                                    |   |  | || | |  |  || |  |       | | ||  | || |  ||        | | |  |  |  |  ||| ||   |   ||    | || |  |    |||| || |||||| ||||| |||||||||| || || ||| | |||||||||||||| |||||||| || ||  | || ||||| ||||| || || ||||
----------------------------------aatcaattggttcaactaagagtctggtgaattgtctatggagtgattatatgt--------gtactctgatagataaggatttgcattctgagatttgcttttgc----agGCGTTTGAGAAGTACAGTGTGGAGAAGGATATAGCTGAGAATATAAAGAAGGAGTTTGACAAGAAACATGGTGCTACTTGGCATTGCATTGTTGGTCGCA

upper sequence: GRMZM2G472231_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0077g02110.t01 (Vitis vinifera), 3'ss of exon 1

gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgct-ccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA
                       | |   | | ||||  || |  |   ||||| ||  ||   |     |||   |  ||   |   ||     |    | ||     ||   |   ||| ||   ||   |    | ||  |||||| |  ||||| |||||| |||||||  |||| |||||||| || |||||||||||||| ||||| || || || |||||||| ||||| ||||| ||||
----------------------gttggctttctttctctct-caatttctttggcttaggtttttattttttggaaaatggaaataatttacttcttttttctgtttgatttctgtgatttttggatatgggtctgatctcaatcagGCTTCGGAGAATCACAGTGTGGAGAAAAACATTGCGGAGTATATCAAGAAGGAGTTCGATAAGAAGCATGGACCTACCTGGCATTGCATTGTCGGTCGCA

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|211202480|gb|FL075815.1|FL075815

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|29130865|gb|CB381569.1|CB381569

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|18164831|gb|BM334670.1|BM334670

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199915|gb|FL075798.1|FL075798

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|76281556|gb|DV021124.1|DV021124

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211202481|gb|FL075816.1|FL075816

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199921|gb|FL075804.1|FL075804

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199916|gb|FL075799.1|FL075799

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199918|gb|FL075801.1|FL075801

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199917|gb|FL075800.1|FL075800

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|78021298|gb|DV489685.1|DV489685

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|30306731|gb|CD001404.1|CD001404

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|60399080|gb|DN231894.1|DN231894

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199919|gb|FL075802.1|FL075802

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211202478|gb|FL075813.1|FL075813

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTTCATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|29946095|gb|CB815976.1|CB815976

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211202479|gb|FL075814.1|FL075814

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|29130306|gb|CB381010.1|CB381010

EST:     GAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: GAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|30704768|gb|CD058596.1|CD058596

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|18165144|gb|BM334983.1|BM334983

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|31612227|gb|CD568849.1|CD568849

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211202474|gb|FL075809.1|FL075809

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|67013294|gb|CO442043.1|CO442043

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|60356545|gb|DN223518.1|DN223518

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211202477|gb|FL075812.1|FL075812

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211540674|gb|FL444170.1|FL444170

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|18170938|gb|BM340778.1|BM340778

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|5740448|gb|AI948138.1|AI948138

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|29946093|gb|CB815975.1|CB815975

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199924|gb|FL075807.1|FL075807

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|76281555|gb|DV021123.1|DV021123

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

EST: gi|211199922|gb|FL075805.1|FL075805

EST:     CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATC                         GCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG
genomic: CCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 316

GCCGGCAGCGACCGCGACTGCGGTTGCGCACAAGATCCAGCTCAAGAGTGCCGACATGAAGGAGGAGATGCGGCAGGAGGCCTTCGAAATTGCTCGCATCgtaagaacct ... tgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 287

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 210

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 98

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA

                        cttttctgtcgattcc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaaccttatgcccttgctctcgctctgccttcttcctgcgctcgatttggtttccgtcgctccccttgttgaccggttcttcgttgggaatgggatttggccatttggggacttttctgtcgattccttctctgtcggtcagGCATTCGAGAAGCACAGTATGGAGAAGGACATCGCGGAGTACATAAAGAAGGAGTTCGACAAGAACCACGGCCCCACCTGGCACTGCATCGTCGGCCGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC