Sequence
atgc intronic sequence ATGC exonic sequencegtgtttgatggctcacagctcttctttcaattgtaaaattaggaatagtataacagttaaatttctttctttaatgcttgttacagATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 6
gtgtttgatggctcacagctcttctttcaattgtaaaattagga-atagtataacagttaaatttctttctttaatgcttgttac-agATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
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gttaactagaccttctaccttagctttct-tcataccgcagacacatttcatcatctctatgttaaaattgttgatgattttttctagATTACTCCAGCAAAGGATGGAAAACCTGTGCAGATTGAGCTCATTGATGCAAAAACAAAGGAACACAAAGAAACCCTCGAG
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 6
-gtgtttgatggctcacagctcttctttcaattgtaaaattaggaatagtataacagttaaatttctttctttaatgcttgt-tacagATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
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gttaccttgagattca--actcaagctttctccataatat--gaaatcttttgacactattgtaaccttgcaacatccatatctctagATTACCCCAGCAAAGGATGGTAAACCCGTGTTGATTGAGTTAATTGATGCTAAGACAAAGGAACACAAGGAAACACTTGAG
upper sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 6
gtgtttgatggctcacagctcttctttcaattgtaaaattaggaatagtataacagttaaatttctttctttaatg---------cttgttac-agATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
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gttcacctttgctctagcttcctcaaagtattccagacttttttttgacatagttgaataatctgtatgttgaatggtctattgatttttcaccagATTACTCCTGCAAAGGATGGAAAACCTGTGCTCATCGAGCTTATTGATGCAAAGACAAAGGAGCACAAAGAAACCCTTGAGMapped 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|110371471|gb|EC935522.1|EC935522EST: GAAAAATTGATTATTATACTGGTGTATTTGCAAGCAAG ATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCA
genomic: GAAAAATTGATTATTATACTGGTGTATTTGCAAGCAAGgtgtttgatg ... cttgttacagATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaaaattaggaatagtataacagttaaatttctttctttaatgcttgttacagATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
tataacagttaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtttgatggctcacagctcttctttcaattgtaaaattaggaatagtataacagttaaatttctttctttaatgcttgttacagATTACTCCAGCTAAGGATGGAAAACCTGTTATGATTGACCTCATTGATGCAAAGACAAAGGAACCAAAGGATACTTTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA