Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagtttttttgtttcatagaattgtgtaatcttacactttagtttagttttatgattcaatgtttaaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G400223_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os12g42160.1 (Oryza sativa), 3'ss of exon 12
gtatgtagtttttttgtttcatagaattgtgtaatcttacactttagtttagttttatgatt-caatgttt--aaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
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gtatgtagaactttt---tccttgagtggtaggatttacatctattctttatttttttggtaataatgtttgcaaacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
upper sequence: GRMZM2G400223_T01 (Zea mays), 3'ss of exon 11
lower sequence: AT1G72250.1 (Arabidopsis thaliana), 3'ss of exon 15
------------------------gtatgtagtttttttgttt-cataga----attgtgtaatcttacactttagttt--agttttatgattcaa---tgtttaaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
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gtattgaattttcttcttgaagctgcaaccactttctttgtttacatatgtttcactgacaaattctgtttatctgttataaagcttacgatgaaaatttactggtatatgacagGAGGAGATTCAAAAACCCTCATGTTTGTACAAATCAGTCCTAACGAGAATGATCAAAGTGAGACACTATGCTCACTGAATTTTGCTAGCAGAGTGAGAGG
upper sequence: GRMZM2G400223_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv19s0027g00080.t01 (Vitis vinifera), 3'ss of exon 13
--------gtatgtagtttttttgtttcatagaattgtgtaatcttacactttagtttagttttatgatt-----caatgtttaaacaatac------agGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
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ttttgtcggtttcttggaaattaactttaattcagcttttatctttacaatttatatggagacaagaacaactgatgatgcgcgagcttttctttgttagGAGGAGACTCCAAGACGCTCATGTTTGTACAGATCAGTCCTAATGAGAATGACTTGAGTGAGACTCTTTGCTCCCTCAATTTTGCAAGTAGAGTGAAAGGMapped 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|5566690|gb|AI881706.1|AI881706EST: GAATTCGAAGCTAACACACTTGCTACAAGACTCATTAA GTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACG
genomic: GAATTCGAAGCTAACACACTTGCTACAAGACTCATTAAgtatgtagtt ... aacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgtaatcttacactttagtttagttttatgattcaatgtttaaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
atcttac putative branch site (score: 3)
ttttatgattcaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagtttttttgtttcatagaattgtgtaatcttacactttagtttagttttatgattcaatgtttaaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG