Sequence
atgc intronic sequence ATGC exonic sequencegtatgttgttgagtcttattcttgagtgcatgttcattattactactattattttgaatgatgattcactatttcctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
Basic information
species | Glycine max |
transcript | GLYMA07G01890.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g10150.1 (Oryza sativa), 3'ss of exon 4
-------------------------------gtatgttgttgagtcttattcttgagtgcatgttcattattactactattattttgaatgatgattc--actatt----tcctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
| || | | || | |||| || | | || | | ||||| | | | ||| || || | || ||||||||||||||||| ||||||| ||||| ||||| ||||||||||| | ||
gtaatggagcatgaactagatttttttttttttttgctttccggtttatggtttgattggtttctttttctcttaagaattatcaactacgttttttctaaccatacacatttttcatgcagGTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTC
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g54100.1 (Oryza sativa), 3'ss of exon 4
------gtatgttgttgagtcttattcttgagtgcatgttcattattactactattattttgaatgatgattcactatttcctttg----tgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
| | || | || | | ||| |||| || || | | || | ||| | ||| ||| | | || |||||||||||||||||||||| || || ||||| ||||||||||||| |||
gtaatgacacctcattttgactactacgagagaaactgtt--ttctttttgccctt-tccaaaattttaattaacttggtttatgaaaaatgtagGTTATGGATATGCTGGGACCCAGTCTTTGGGATGTTTGGAATAATAATTCTCACAC
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G045259_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------------------gtatgttgttgagtcttattcttgagtgcatgttcatt-attactactattattttgaatgatgattcact--atttcctttg--tgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
| ||| || | | || || | ||| || | |||| || | | | | || | |||| |||| || ||||||||||||| ||||||| ||||| ||||| ||||||||||||| ||
gtttgggcaatgaaccttcttatatttgtttcacttgttatgcacatgttaatatagatattagataggcagatggtattggtgcaaatcttcttttggtcctctttcgttgacaactattaacaaacttggttcttgttaatccgatttggtttgcatgtagGTTATGGATATTTTGGGACCAAGCCTATGGGATGTTTGGAATAATAATTCCCACTC
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G120951_T01 (Zea mays), 3'ss of exon 4
gtatgttgttgagtcttattcttgagtgcatgttcattattactact-attattttgaatgatgattcact--atttcctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
|||| | | || || |||| | | ||| || | || || |||| ||| | || ||| | | | ||||||||||||||||| ||||| || || ||||| || |||||||||| |||
gtataacactctggattgttg--gagtattagcttatt--tatttctgatcgttttagatgctagttaacttggtcttaaaaattcagGTTATGGATATGCTCGGACCCAGTCTGTGGGATGTCTGGAATAATAAATCTCACATMapped 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|192326672|gb|FK018514.1|FK018514EST: GTGTACCTCAAGTACACTACAAGGGCAGGCAGGGTGACTATTATGTCATG GTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAAT
genomic: GTGTACCTCAAGTACACTACAAGGGCAGGCAGGGTGACTATTATGTCATGgtatgttgtt ... ctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttcattattactactattattttgaatgatgattcactatttcctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
ttcactatttccttt CT-rich tract
attattactactatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttgttgagtcttattcttgagtgcatgttcattattactactattattttgaatgatgattcactatttcctttgtgcagGTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG