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

gttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG

Basic information

species	Zea mays
transcript	GRMZM2G152552_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g33920.1 (Oryza sativa), 3'ss of exon 1

gttcgccccgtctgttcattcctgctcgatatgggaggggtc---tttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG
|| ||     || |||| | | ||    || |    |  | |   | ||||||||| ||||||      ||  || | || ||   ||||    ||  || ||||||| |||| |||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||| |||||||||
gtacgg---atccgttcttgcttgaagaattttcttgttgcctggtgtggtttcttgatctgttgcagatttgtgat-gtgtttggtggtggattg--ttgttgcagGTGGGAGGCTTGTGTACCAGTACACGAAGAAGAGGGCGAGCGGGCCGAAGTGCCCCGTCACCGGGAAGAAGATCCAGGGG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G14980.1 (Glycine max), 3'ss of exon 1

-------------gttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG
             | ||||  ||  |  || ||  | |||  |   || | |   ||||         | |        |     ||  | |    ||| | | ||  |   |||||| || |||||||| || |||  ||| ||||||||||| ||||| ||||||||||| ||||| || ||||  || || |||
gtaaactgtcttcgctcgcttcgcatcgtcgtttattctcactcatggcgtgtcgtttgcgccgcgagtgttctaaaaatagactgtaatgtgcggtggctggttgt-tgaatgcagGTGGCAAGCTTGTTTATCAGACCACGAAGAAGAGGGCCAGCGGACCCAAGTGCCCTGTCACTGGAAAGAGGATTCAAGGG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G41280.1 (Glycine max), 3'ss of exon 1

-----------------gttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtatt--aattggt--tcgctggattct---tgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG
                 | ||||| |   |  || ||  | ||| |     |  | ||  | | |||      | | |  |  | |     | ||||  |||  |   | ||||  |  |   |||||| || |||||||| || |||  ||| ||||||||||| ||||| ||||||||||| ||||| || ||||  || || |||
gtaaataaactctcttcgctcgcctcacatcgtcgtttattctc-actcacggcgcgttgtcgttttgcgccgccgcgagggctccaaaaatatattttaatgtgcggttgctgattgttgaatgcagGTGGCAAGCTTGTTTATCAGACCACGAAGAAGAGGGCCAGCGGACCCAAGTGCCCTGTCACTGGAAAGAGGATTCAAGGG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G05740.1 (Glycine max), 3'ss of exon 1

---------------------------------------gttcgccccgtctgttcattcctgctcgatat---gggaggggtctttggt-ttctttatctgtgttgtgttcttggttgtattaattggttc-gctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG
                                       |  |      | | ||  ||  || |   | |      |   || |||||| ||  ||   | || || || |      || ||  ||||||| |  ||| |  |||||| |||||||| || || |||   |||||||||||||| ||||| ||||||||||||||||| || ||||  || ||||||
gtaatcaaatccctccctcactgattatgcttcggatcggaacaatttttgtttttgtttttgttttgttttaaaaaaaaagtttttggtattaattggttctgctgggtac------gtcttgtttggttctgtgggaataatgcagGTGGGAAGCTCGTTTATCAGACTACCAAGAAGAGGGCCAGCGGACCCAAGTGCCCCGTCACTGGCAAGAGGATTCAGGGG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G11920.1 (Glycine max), 3'ss of exon 1

----------------------gttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttct--ttatctgtgttg--tgttcttggt-----tgtattaattggtt-cgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG
                         | | |   || |||  |  ||||    || |||    | |||| ||| |  || |  || ||   || |  ||       |||  |  |||||   |  ||| |  |||||| |||||||| || || |||  ||||||||||||||| ||||||||||||||||||||||| || ||||  || ||||||
gtaatcaaatccctcttcggaacccctcactcactcttcgattatgcttcgaatcggaacaatttttgctttttaattttgggtattaattggttctgacgggtatgttgtgtttggtgatgtgggaataatgcagGTGGGAAGCTCGTTTATCAGACCACCAAGAAGAGGGCCAGCGGGCCCAAGTGCCCCGTCACTGGCAAGAGGATTCAGGGG

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|32908558|gb|CF013371.1|CF013371

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|60340593|gb|DN207566.1|DN207566

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|15208720|gb|BI430604.1|BI430604

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075792|gb|FL122631.1|FL122631

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTGAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075783|gb|FL122622.1|FL122622

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|19770210|gb|BQ034931.1|BQ034931

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|32937599|gb|CF042418.1|CF042418

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|15499395|gb|BI595908.1|BI595908

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|30031693|gb|CB833544.1|CB833544

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|9255232|gb|BE345700.1|BE345700

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075789|gb|FL122628.1|FL122628

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGG
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGG

EST: gi|32846789|gb|CD986470.1|CD986470

EST:     TCACAGTTACGCTTCGAAGTCCAACCAGATCCGAGTCGTCAAGACCCCAG                         TCGGTAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|30031692|gb|CB833543.1|CB833543

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|60352266|gb|DN219239.1|DN219239

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|32910557|gb|CF015369.1|CF015369

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|16919052|gb|BM074017.1|BM074017

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|15198797|gb|BI423490.1|BI423490

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGC-TGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|15427013|gb|BI542835.1|BI542835

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075786|gb|FL122625.1|FL122625

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|71770590|gb|DR968527.1|DR968527

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|32911317|gb|CF016129.1|CF016129

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075787|gb|FL122626.1|FL122626

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|8930357|gb|BE225121.1|BE225121

EST:     ACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: ACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075788|gb|FL122627.1|FL122627

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075791|gb|FL122630.1|FL122630

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075781|gb|FL122620.1|FL122620

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211078527|gb|FL122635.1|FL122635

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|32857276|gb|CD996957.1|CD996957

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|45567828|gb|CK985766.1|CK985766

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|60342856|gb|DN209829.1|DN209829

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|5566758|gb|AI881624.1|AI881624

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

EST: gi|211075784|gb|FL122623.1|FL122623

EST:     TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAG                         GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT
genomic: TCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGT

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), 47 (downstream exon)
Score: 387

GGGTTTAGCGGCGGCGGCGAGATGGTGCAGCGCCTCACGTACCGGAAGCGTCACAGCTACGCTACGAAGTCCAACCAGACCCGAGTCGTCAAGACCCCAGgttcgccccg ... attcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 163

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 145

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 183

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG

                           tattaat  putative branch site (score: 183)
                                              ttcttgc  putative PPT
                        ttgtattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgccccgtctgttcattcctgctcgatatgggaggggtctttggtttctttatctgtgttgtgttcttggttgtattaattggttcgctggattcttgcagGCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA