Sequence
atgc intronic sequence ATGC exonic sequence...atgaagcatagatgaaaccatcagttgctttatgacttgccaaatcattttttgttttgatgaagttggttattaacttcgttatttattctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATACTTTGTACAACTTCATAGCATATAGAGAACCTCTCCGAATCCAAAATGCA
Basic information
species | Glycine max |
transcript | GLYMA10G02250.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G02250.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os11g43860.1 (Oryza sativa), 3'ss of exon 8
-------atgaagcatagatgaaaccatcagttgctttatgacttgccaaatcattttttgttttgatgaagttg-gttattaacttcgttatttattctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATACTTTGTACAACTTCATAGCATATAGAGAACCTCTCCGAATCCAAAATGCA
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gtacatttctgcacatctcctctccaattagttg-ttcatgcctaccttcaaccttttgtaaatttatcttatcgaggcgggataaacggtatatcttatttccacagCAATTCGGTGAACATATATGTCGGCATTGGTGTTCCATGGTTGGTGGACACAATGTACAACTATTTTGTCTACCAGAAGCCCCTGTACATAGACAATGCT
upper sequence: GLYMA10G02250.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G126601_T01 (Zea mays), 3'ss of exon 8
atgaagcatagatgaaaccatcagttgctttatgacttgccaaatcattttttgttttgatgaagttggttattaacttcgttatttattctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATACTTTGTACAACTTCATAGCATATAGAGAACCTCTCCGAATCCAAAATGCA
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---------------gtttgttcctgccattttcatttgtcatgt--ttccatttcctggatctggagccgaataagctgacaaaattcccttgttgcagTAACTCGGTGAACATATATGTTGGCATTGGTGTTCCATGGTTGATTGATACAGTGTACAACTTCTTCGTTTACCGGGAACCATTGTACATAGATAATGCTMapped 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|13240212|gb|BG359521.1|BG359521EST: GAACGTCAAAAAACTGCTGATTCTGCAATTGCAAACATCACTTGCAG CAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATAC
genomic: GAACGTCAAAAAACTGCTGATTCTGCAATTGCAAACATCACTTGCAGgttttccatc ... ctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttttgttttgatgaagttggttattaacttcgttatttattctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATACTTTGTACAACTTCATAGCATATAGAGAACCTCTCCGAATCCAAAATGCA
tattaac putative branch site (score: 1)
ttatttattcttttt putative PPT
ttattaacttcgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaagcatagatgaaaccatcagttgctttatgacttgccaaatcattttttgttttgatgaagttggttattaacttcgttatttattctttttgtagCAATTCAGTGAATATATATGTTGGTATTGGTGTTCCATGGCTTATTGATACTTTGTACAACTTCATAGCATATAGAGAACCTCTCCGAATCCAAAATGCA
- - - - - - - - accatca
- - - - - - - - - - - -gttgctt
- - - - - - - - - - - - - - - - - -cttgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttggtt