Sequence
atgc intronic sequence ATGC exonic sequencegttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
Basic information
species | Glycine max |
transcript | GLYMA17G20610.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G066867_T01 (Zea mays), 3'ss of exon 2
-----------------------------------------------gttcttatttaatttgtt---tacttattct-acacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
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gtccattccttttctttcgtcttctctcgctttcatcaacgctgcttgctcgtgctgcctttcctctgtacttgtgatgacactcctgccctgtacaactacaaacatggtacactaatcaaactgtcaaagct-tctttcagGCGCGTTTCTTTTTCCAGCAACTCATATCAGGGGTCAGCTACTGCCATTCCATG
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G081915_T01 (Zea mays), 3'ss of exon 2
------------------------gttcttatttaatt--tgtttac-ttattctacac-ctgaatgctataagt-ttgtacttattctac---gctagt----ttgt--aacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
| | | || || || | | | | | || | |||||| | | | | || ||| | ||| || || | || ||||||| || ||||| || || ||||||||||| ||||||||||| |||||| | |||
gtccgtctttctctcgctatcatcgaccctgcttgcttgctgctcgtgctgtcttgtgcactaattgctatctgcgccactcctgcttcactggactaatcaaactgtcaaagcccctttttcatttcagGCGCGTTTCTTTTTCCAACAACTCATATCAGGGGTCAGCTACTGCCATTCCATG
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 3
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 3'ss of exon 3
gttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
||| || | | |||| ||| || ||| | ||| || || | | ||| || ||||| | ||||||| |||||||||||||| || |||||||| || |||||||| ||||| |||
------gtttggatt-ctgatttatcgtactgtgttgtggtattgatgtgtgacta-------ctgatctttaagtt-tttttatg-tatagGCTCGGTTCTTCTTTCAGCAGCTTATATCTGGAGTTAGCTATTGTCATGCAATG
upper sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 3
gttctt-atttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
|||||| ||| || || || || || | ||||| || ||| | | | ||| || |||| | | |||||||| || |||||||| || || ||||| |||||||||||||| ||||| |||
gttcttgattcaacccattgggttttttcttttctagtt--------tttgtgctatttccatggtttcttgacactggttgcttc--tgcagGCTCGCTTTTTCTTTCAACAGCTTATATCAGGGGTCAGCTATTGTCATGCAATGMapped 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|17152867|gb|BM142800.1|BM142800EST: GAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAG GCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCT
genomic: GAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttattt ... tatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
ttgtaac putative branch site (score: 2)
tacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT