Sequence
atgc intronic sequence ATGC exonic sequencegtacttctgtttcatttcacaagaacctcattatactgtttttgtactcaatatttattctcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGAGGCCTGATATCTTTAG
Basic information
species | Oryza sativa |
transcript | LOC_Os05g11140.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G116151_T01 (Zea mays), 3'ss of exon 7
----------------------------------gtacttctgtttcatt----tcacaagaacctcat-tatac-tgtt--tttgtactcaatatttattc-tcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGAGGCCTGATATCTTTAG---------------------------------
| ||| || ||| || | | ||| ||||| |||| ||| ||| || ||| ||| ||| ||||||||| || ||||||||||||||| | || ||||||||||| |||||||||||||||||| |||| ||
gtatttttgtttttaaatttcagttcagaggaacattcttgtgagatattgggcccagtgggtcttcaaatatacatgttagttttgacttaacattgatttgtcaacacagCTACCAGATGGAAAGACACTGGTACAGGAGAGCATGTTGAATATGATCAGAGGCCTGATGTCTTCAGGTTTGCAATAGAAATACTTCACTAGGTTTTATC
upper sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 7
----------------------------------gtacttctgtttcatt----tcacaagaacctcat-tatac-tgtt--tttgtactcaatatttattc-tcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGAGGCCTGATATCTTTAG
| ||| || ||| || | | ||| ||||| |||| ||| ||| || ||| ||| ||| ||||||||| || ||||||||||||||| | || ||||||||||| |||||||||||||||||| |||| ||
gtatttttgtttttaaatttcagttcagaggaacattcttgtgagatattgggcccagtgggtcttcaaatatacatgttagttttgacttaacattgatttgtcaacacagCTACCAGATGGAAAGACACTGGTACAGGAGAGCATGTTGAATATGATCAGAGGCCTGATGTCTTCAGMapped 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|29681938|gb|CB678213.1|CB678213EST: CCCAGGAACCCTGGAAGAGAAAAAACTTTTTCTTGTTGACCTTGGATTAG CTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGA
genomic: CCCAGGAACCCTGGAAGAGAAAAAACTTTTTCTTGTTGACCTTGGATTAGgtacttctgt ... ctcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcacaagaacctcattatactgtttttgtactcaatatttattctcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGAGGCCTGATATCTTTAG
tttattctc CT-rich tract
tttttgtactcaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttctgtttcatttcacaagaacctcattatactgtttttgtactcaatatttattctcatcacagCTACTAGGTGGAAAGACACTGGTTCGGGGGAGCATGTTGAGTATGATCAGAGGCCTGATATCTTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA