Sequence
atgc intronic sequence ATGC exonic sequencegtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttgtaacactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
Basic information
species | Glycine max |
transcript | GLYMA07G09070.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g22640.3 (Oryza sativa), 3'ss of exon 1
gtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttgtaacactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
||||| | || || || || |||| | |||| || | || | | || | || | || | || |||| ||||| || ||||||||| ||||||||||| | ||||| || ||| |||| ||||||||||||| || | |||||||| ||
gtgagatgaaagtattttgaacatttaatttcttctaacagattataaaat------cctgaccatgattcctctcctttaatt---agGACACTGTCAATTCAATTGTTTCTGACATGCTCAAGTGGCCACACAGGCTTGTTGTTCCACTTGGTGTCAAT---GTTGATACAAG
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttg---taacac-taatatttacccaccattttac-agGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
|| |||| || || | | | | | | || ||| | | |||||| | | || | ||| | | | | |||||||||| | | || || | |||||||| || ||||||||||| ||||| ||||| ||||||| |||||||||||| ||
gtaagttcctctcttggta-gttcaagcagtttcaagaggttttatttgttcccatttggtcttatacacagcttttgcttctctctatgttagGATACTGTTGATACTATCGTCAAAGACATGCTTCAGTGGCCTCATAGAATTGTTGTTCCCATTGGTGGTATTCCTGTTGATTTAAG
upper sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 3'ss of exon 8
gtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttgtaa-----cactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
|| |||| ||| | | | ||| | | | | | | | ||| || | | | |||| ||| ||||||||||||| | ||| | || || |||||||||||||| || |||||||| |||||| ||||||| || ||||| ||||| ||
gtaagtttctttatgttgtcaaaacatttgctttcttatttctgattgatttttgtttatagactagtaatgctgtttatgtttcatcgagtagGATACTGTGAATACCATTATCACAGATATGCTCCAATGGCCCCACAGGATTGTTGTTCCAATTGGTGGTATGCCTGTGGATACAAGMapped 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|27808987|gb|CB063409.1|CB063409EST: CTGTTGGTGGAAGTTTAACGGCTATTCCTGGAATCTCAGATATGATTGAT GATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATT
genomic: CTGTTGGTGGAAGTTTAACGGCTATTCCTGGAATCTCAGATATGATTGATgtgagttact ... cattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacagtttttgaagtagcatttgtaacactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
cactaat putative branch site (score: 2)
ccatttt putative PPT
taacactaatattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttacttgttttatgtactgcatctttcacttgacagtttttgaagtagcatttgtaacactaatatttacccaccattttacagGATACTGTGAACTCAATTGTTACTGACATGCTCCAATGGCCTCATAGGATTGTGGTTCCACTTGGTGGCATTCCTGTTGATACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG