1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' |
gtaagtatccttttcagatgaattatcatagcgcttccttctatgatctgtggatagtattagatcataacatattaggaccttgagttattacttgttagtcgaacatttctttttcattgcttcaaaacagagaccctaaatttgttgacatgcctttccccctttattttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG
species | Oryza sativa |
transcript | LOC_Os09g12660.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86500004|gb|CI142637.1|CI142637
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88849769|gb|CI001475.1|CI001475
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|30228286|gb|CB966177.1|CB966177
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGAT-GTTGGACTCCGGTCCTGTATATCTGAEST: gi|86496727|gb|CI139360.1|CI139360
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTG-TGGTTGGACTCCGGTCCTGTATATCTGA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86494922|gb|CI137555.1|CI137555
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|24468914|gb|CA305863.1|CA305863
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGACEST: gi|87010148|gb|CI279245.1|CI279245
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|89164207|gb|CI101295.1|CI101295
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88967313|gb|CI002497.1|CI002497
genomic: TTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: GTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88225908|gb|CI225824.1|CI225824
genomic: GTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TGGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86517463|gb|CI157669.1|CI157669
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86500640|gb|CI143273.1|CI143273
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86504994|gb|CI147627.1|CI147627
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86504993|gb|CI147626.1|CI147626
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|58683758|gb|CK072445.1|CK072445
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86858990|gb|CI275175.1|CI275175
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88227669|gb|CI227149.1|CI227149
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: GTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88232188|gb|CI230646.1|CI230646
genomic: GTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88222446|gb|CI222402.1|CI222402
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|218485015|gb|FG946141.1|FG946141
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGACEST: gi|29675781|gb|CB672056.1|CB672056
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|86520775|gb|CI160981.1|CI160981
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88222920|gb|CI220666.1|CI220666
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: GTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAEST: gi|88957454|gb|CI095395.1|CI095395
genomic: GTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
EST: GGTGAAGGTTGTGTTATTAGA CATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
genomic: GGTGAAGGTTGTGTTATTAGAgtaagtatcc ... ttttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAA
tcaaaacagagaccctaaatttgttgacatgcctttccccctttattttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG
tgttgac putative branch site (score: 184)
catgcctttccccctt CT-rich tract
taaatttgtt TA-rich tract
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaagtatccttttcagatgaattatcatagcgcttccttctatgatctgtggatagtattagatcataacatattaggaccttgagttattacttgttagtcgaacatttctttttcattgcttcaaaacagagaccctaaatttgttgacatgcctttccccctttattttggctagCATTGCACAATCAACCATTCTGTGGTTGGACTCCGGTCCTGTATATCTGAAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA