Sequence
atgc intronic sequence ATGC exonic sequenceTGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g21770.1 (Oryza sativa), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttc-tcccattagtgcatgttttgagaggggtttat-ctagtaaaatcactgtgaaatggctccacattttgccc
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-------------------------------GTACTGCAAGTGCGAGATGCCGTATAACCCGGATGATCTAATGGTGCAGTGCGAGGGATGCAAGGACTGgtaaatcacttggggacatccttacctttcatactgcatctggctgaccgaagggtatttcatgcccgtcatttttaggaggaagtatcatagactcagt--
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-
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-------------------------------GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta-tgtatgtggaatttgagaa
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G34850.1 (Glycine max), 5'ss of exon 2
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactc-cacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtga---aatggctccacattttgccc
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-------------------------------GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtttattctgatttactttgtttggagtttggattttgtttatgtatgtggaatttgagaaatagatgttatttactgggttgaagggat----
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G35680.2 (Glycine max), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttt-tctcccattagtgcatgttttgagaggggtttatctagtaaaatcactg-tgaaatggctccacattttgccc
||||||||||| |||||||| || ||||| ||||||||||||||||||||||| || |||||||| ||||||| || ||| | || | |||| | | | ||| | ||| || |||| || ||| | || || | | | | |||
-------------------------------GTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGgtaaag-ccagtgtattctgctttctttgtttactgttattacat-ttgtgagtggtttttggatgtccgggtctctaattttagcattagatgcgttgttt
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G34740.1 (Glycine max), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctc--ccattagtgcatgttttgagaggggtttatctagtaaaatcactg-tgaaatggctccacattttgccc
||||||||||| |||||||| || ||||| ||||||||||||||||||||||| || |||||||| |||||||| || || | || | |||| | | ||| | ||| || |||| || ||| | || || | | | | |||
-------------------------------GTATTGCAAGTGCGAGATGCCTTATAACCCAGATGACCTCATGGTGCAGTGTGAGGGGTGCAAGGATTGgtaaaa-ccagtatattctgcttttttttgtttactgttattacat-ttgtgagtggtttttggttgtctggttctctaattttagcattagatgcgttgtt-
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT4G22140.2 (Arabidopsis thaliana), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-------------------------------------
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-------------------------------GTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGTGTGAAGGCTGCAAAGACTGgtaaa-tgttgatatttgtcttttttattaacttccttacttgtgtttcaacagaaaagagacta-tatgtctgtttttaaacttacgtattcttttccaggaattattgataataagcattaattcgctgttgtag
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0059g01180.t01 (Vitis vinifera), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacactt-ttctcccat-tagtgcatgttttgagaggggtttat--ctagtaaaatcactgtgaaatggctccacattttgccc
||||| ||||| |||||||| || || ||||| ||||| ||||||||||| |||||||||||||||||||| | | | || | | | | || ||| || | | | | || || || | ||| | | | ||| | | || |||
-------------------------------GTATTGTAAGTGCGAGATGCCTTATAATCCGGACGACCTTATGGTGCAGTGCGAAGGATGCAAGGACTGgtatacttgt-tgcatattttttatttgttcagttatgcggaaaactaatcaaaagaaattaatgccctgtacatttgtgaggttttggttttaaatattg---
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv10s0116g00160.t01 (Vitis vinifera), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttt--tctcccattagtgc-atgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc
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-------------------------------GTATTGCAAATGCGAGATGCCTTATAACCCAGATGATCTTATGGTCCAGTGCGAGGGGTGCAAGGACTGgtaacctgcttttgttattcttttgttgggtttccggttgttgttgtgttttgtgtcatttcagttttgtatc-tgattttgtaaaaacatggaaactcaa--
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: PP1S384_37V6.1 (Physcomitrella patens), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatc-ctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-----------
|||||||||||||||||||| |||||||| || || | ||| || | || | | ||||| ||||||| | | ||||| ||| | | | | ||| |||| | ||| | | | |||||| | | ||| | | | | | | | |
-------------------------------GTATTGCAAGTGTGAGATGCCATACAACCCTGACCACGTGATGCTGGAATGCAACAGTTGCAAAGACTGgtgaggttgctgtg----ctcta---atattgctcatcagtgaagtgcttgctcag---tcagtcagtaaagactc-gtgcctcgac-ctaagtctcgtgcgcttgaagctt
upper sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ26805 (Selaginella moellendorffii), 5'ss of exon 3
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc
|| |||||||| |||||||| |||||||||||||| || |||||||||||||| | ||||| ||||||||| | | || ||||| || | | ||| || || | ||||| | |
-------------------------------GTACTGCAAGTGCGAGATGCCTTACAACCCGGATGATCTTATGGTGCAGTGTGAGGAGTGCAAAGACTGgtaagaatcagt---------------ttctctcaaatccaaaagccttggcagcctccgatg-aaaaaaatggcag-----------------------Mapped 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|78090599|gb|DV518973.1|DV518973EST: CCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTG TTTCCTTTTGACTGCGAGGCGAAGTATAATTCATCTGGAATATCTACTTTG
genomic: CCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcct ... gtttatttagTTTCCTTTTGACTGCGAGGCGAAGTATAATTCATCTGGAATATCTACTTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG